ENCFF998KKJ bed narrowPeak optimal idr thresholded peaks ENCSR506KWJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens XRCC5-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF245CYX, ENCFF720UBT, ENCFF755KRH 202079 ENCODE Processing Pipeline 7f68216ee11aceabaef58f989588a190 https://www.encodeproject.org/files/ENCFF998KKJ/@@download/ENCFF998KKJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF992QZV bed narrowPeak optimal idr thresholded peaks ENCSR494TDU ChIP-seq EFO:0002067 K562 cell line Homo sapiens NRF1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF312EZM, ENCFF477OCU, ENCFF940NRT 622007 ENCODE Processing Pipeline abd4e1b435d690187f35c0bf71fe5cdb https://www.encodeproject.org/files/ENCFF992QZV/@@download/ENCFF992QZV.bed.gz hg19 released mild to moderate bottlenecking ENCFF638YFC bed narrowPeak optimal idr thresholded peaks ENCSR494TDU ChIP-seq EFO:0002067 K562 cell line Homo sapiens NRF1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF116JUN, ENCFF731JDO, ENCFF794VUJ 549409 ENCODE Processing Pipeline 251eed7221822cb7a11fd6e446f1ffc8 https://www.encodeproject.org/files/ENCFF638YFC/@@download/ENCFF638YFC.bed.gz hg19 archived mild to moderate bottlenecking ENCFF795SAO bed narrowPeak optimal idr thresholded peaks ENCSR954KIC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KAT8-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF270JUJ, ENCFF633NDL, ENCFF636XFC 627113 ENCODE Processing Pipeline 2b35628d81e8c08f99d885f9ae251cc7 https://www.encodeproject.org/files/ENCFF795SAO/@@download/ENCFF795SAO.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF815TTY bed narrowPeak optimal idr thresholded peaks ENCSR149ZBI ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF584-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF496DRF, ENCFF586UNH, ENCFF870WRO 231991 ENCODE Processing Pipeline 8eb29d69d43dda0167d9a6380166fde5 https://www.encodeproject.org/files/ENCFF815TTY/@@download/ENCFF815TTY.bed.gz hg19 released mild to moderate bottlenecking, low read depth, missing genetic modification characterization ENCFF494ZUY bed narrowPeak optimal idr thresholded peaks ENCSR654CQU ChIP-seq EFO:0002067 K562 cell line Homo sapiens SNIP1-human DNA False 2017-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF039BZL, ENCFF363FXM, ENCFF842STK 52646 ENCODE Processing Pipeline d84d3f827e6208c9292af63c7bd62158 https://www.encodeproject.org/files/ENCFF494ZUY/@@download/ENCFF494ZUY.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF838IUE bed narrowPeak optimal idr thresholded peaks ENCSR531VIJ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-MIER3-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF003NLI, ENCFF672NHK, ENCFF698JWD 371369 ENCODE Processing Pipeline 0a37c5b68c207e118391e5e63198214c https://www.encodeproject.org/files/ENCFF838IUE/@@download/ENCFF838IUE.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF965ZRH bed narrowPeak optimal idr thresholded peaks ENCSR348JOJ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MTA1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF007YBE, ENCFF078PIE, ENCFF232YBQ 230360 ENCODE Processing Pipeline 034fb3e1a66d522847d0967705c3236c https://www.encodeproject.org/files/ENCFF965ZRH/@@download/ENCFF965ZRH.bed.gz hg19 released antibody characterized with exemption ENCFF712UDN bed narrowPeak optimal idr thresholded peaks ENCSR348JOJ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MTA1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF358UBC, ENCFF730HVB, ENCFF774YZA 185909 ENCODE Processing Pipeline e5f656c30eb3a3926efc3d5a30075e57 https://www.encodeproject.org/files/ENCFF712UDN/@@download/ENCFF712UDN.bed.gz hg19 archived antibody characterized with exemption ENCFF036YVI bed narrowPeak optimal idr thresholded peaks ENCSR787RVK ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-TSC22D4-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF225CMV, ENCFF575RVG, ENCFF597WGL 52645 ENCODE Processing Pipeline f353a61ba2e6c83a03f221aa38684c44 https://www.encodeproject.org/files/ENCFF036YVI/@@download/ENCFF036YVI.bed.gz hg19 released control low read depth, missing genetic modification characterization ENCFF619BDC bed narrowPeak optimal idr thresholded peaks ENCSR635GTR ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-TEAD2-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF267PBD, ENCFF777YSR, ENCFF828PUB 102575 ENCODE Processing Pipeline 3f2a8bb473746d1fb1310641b85ce509 https://www.encodeproject.org/files/ENCFF619BDC/@@download/ENCFF619BDC.bed.gz hg19 released control low read depth, missing genetic modification characterization ENCFF670ZCR bed narrowPeak optimal idr thresholded peaks ENCSR710WLO ChIP-seq EFO:0002067 K562 cell line Homo sapiens MGA-human DNA False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF189YFO, ENCFF207RUE, ENCFF230QTS 626753 ENCODE Processing Pipeline 3572fd53982de4f442b944272468c615 https://www.encodeproject.org/files/ENCFF670ZCR/@@download/ENCFF670ZCR.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF545DAF bed narrowPeak optimal idr thresholded peaks ENCSR117WTM ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF24-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF670KBE, ENCFF694BDZ, ENCFF710KBI 243151 ENCODE Processing Pipeline 2d74e845180c2708a1b8a2f4ba901591 https://www.encodeproject.org/files/ENCFF545DAF/@@download/ENCFF545DAF.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF493TZM bed narrowPeak optimal idr thresholded peaks ENCSR744WOO ChIP-seq EFO:0002067 K562 cell line Homo sapiens TCF12-human DNA False 2016-10-24 ENCODE 1, 2 ENCFF001TDO, ENCFF334SEU, ENCFF337ISL, ENCFF870JMX 509065 ENCODE Processing Pipeline 3683eb367b6ea3aaab2799d3a4abd218 https://www.encodeproject.org/files/ENCFF493TZM/@@download/ENCFF493TZM.bed.gz hg19 released antibody characterized with exemption ENCFF418WDR bed narrowPeak optimal idr thresholded peaks ENCSR253OON ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ATF1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF091AYC, ENCFF246FCW, ENCFF705EEN 254742 ENCODE Processing Pipeline 66a153f2060d613665c656ed0f47f943 https://www.encodeproject.org/files/ENCFF418WDR/@@download/ENCFF418WDR.bed.gz hg19 released control low read depth, mild to moderate bottlenecking, missing genetic modification characterization characterization(s) pending review ENCFF580QGA bed narrowPeak optimal idr thresholded peaks ENCSR772EEN ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-RELA-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF347CVK, ENCFF401ROZ, ENCFF993MOQ 195207 ENCODE Processing Pipeline e5b33520cb44052d0d417f7ef5d0e38a https://www.encodeproject.org/files/ENCFF580QGA/@@download/ENCFF580QGA.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization ENCFF734ALE bed narrowPeak optimal idr thresholded peaks ENCSR054FKH ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-RAD21-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF332OXV, ENCFF765AVR, ENCFF925KRY 1069944 ENCODE Processing Pipeline a693f52a70b13cbf3379c94bebd70962 https://www.encodeproject.org/files/ENCFF734ALE/@@download/ENCFF734ALE.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review ENCFF717TWA bed narrowPeak optimal idr thresholded peaks ENCSR550HCT ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-KLF1-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF255LGM, ENCFF830SMA, ENCFF842XXA 221756 ENCODE Processing Pipeline d6e556ebcba694582483815e5740993f https://www.encodeproject.org/files/ENCFF717TWA/@@download/ENCFF717TWA.bed.gz hg19 released missing genetic modification characterization missing mapped reads lengths ENCFF394IKH bed narrowPeak optimal idr thresholded peaks ENCSR389PWB ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBTB5-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF111ZUY, ENCFF591FNP, ENCFF646ILI 77678 ENCODE Processing Pipeline 765224a8c1770ecdee379605d59b3503 https://www.encodeproject.org/files/ENCFF394IKH/@@download/ENCFF394IKH.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF157UUF bed narrowPeak optimal idr thresholded peaks ENCSR657EOF ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFRKB-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF235FNK, ENCFF338NAH, ENCFF674FOQ 360420 ENCODE Processing Pipeline f149fb690dd6079819477e00024ce227 https://www.encodeproject.org/files/ENCFF157UUF/@@download/ENCFF157UUF.bed.gz hg19 released low read depth ENCFF273BVT bed narrowPeak optimal idr thresholded peaks ENCSR117KWH ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF207-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF432JWQ, ENCFF744DJH, ENCFF790EAG 253776 ENCODE Processing Pipeline 723ae98f692a0545c08fab0660c49ebe https://www.encodeproject.org/files/ENCFF273BVT/@@download/ENCFF273BVT.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF248IWJ bed narrowPeak optimal idr thresholded peaks ENCSR388QZF ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2A-human DNA False 2016-09-27 ENCODE 1, 2 ENCFF001TDO, ENCFF109VMO, ENCFF157PBO, ENCFF656WXD 771608 ENCODE Processing Pipeline 5483386eae2504c8c9ca1e71d470c6a3 https://www.encodeproject.org/files/ENCFF248IWJ/@@download/ENCFF248IWJ.bed.gz hg19 released low read depth ENCFF352HGW bed narrowPeak optimal idr thresholded peaks ENCSR720HUL ChIP-seq EFO:0002067 K562 cell line Homo sapiens E2F1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF252JHJ, ENCFF358UWQ, ENCFF401MRM 359284 ENCODE Processing Pipeline e24abce2eb93185b8fab54ab59d5f784 https://www.encodeproject.org/files/ENCFF352HGW/@@download/ENCFF352HGW.bed.gz hg19 archived mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking, partially characterized antibody ENCFF106DAY bed narrowPeak optimal idr thresholded peaks ENCSR720HUL ChIP-seq EFO:0002067 K562 cell line Homo sapiens E2F1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF199PBO, ENCFF260KBY, ENCFF721GUV 431592 ENCODE Processing Pipeline eebcfeb474d20d087492413655d9c57c https://www.encodeproject.org/files/ENCFF106DAY/@@download/ENCFF106DAY.bed.gz hg19 released mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking, partially characterized antibody ENCFF320THV bed narrowPeak optimal idr thresholded peaks ENCSR178DEG ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-NR2C1-human DNA False 2017-01-31 ENCODE 1, 2 ENCFF001TDO, ENCFF243AWG, ENCFF258HYJ, ENCFF802GJA 447479 ENCODE Processing Pipeline b709cb1dcaca3ca588904fc3e400b3da https://www.encodeproject.org/files/ENCFF320THV/@@download/ENCFF320THV.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization, inconsistent platforms ENCFF580DYE bed narrowPeak optimal idr thresholded peaks ENCSR024LKA ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC3-human DNA False 2018-01-26 ENCODE 3, 4 ENCFF001TDO, ENCFF275SGC, ENCFF883NAR, ENCFF932HNN 203383 ENCODE Processing Pipeline 7d4031c85c21101f3842c25c04a662c7 https://www.encodeproject.org/files/ENCFF580DYE/@@download/ENCFF580DYE.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF197OGH bed narrowPeak optimal idr thresholded peaks ENCSR675LRO ChIP-seq EFO:0002067 K562 cell line Homo sapiens MLLT1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF057GKG, ENCFF400BXE, ENCFF929AWJ 255168 ENCODE Processing Pipeline c15d2ef58a82ef9fef93dd34f601b9fe https://www.encodeproject.org/files/ENCFF197OGH/@@download/ENCFF197OGH.bed.gz hg19 released ENCFF728NEV bed narrowPeak optimal idr thresholded peaks ENCSR621ATC ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF184-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF422XRA, ENCFF544REW, ENCFF729TVF 260121 ENCODE Processing Pipeline fcf09c097b11a2cc09977c01b17abe51 https://www.encodeproject.org/files/ENCFF728NEV/@@download/ENCFF728NEV.bed.gz hg19 released low read depth experiment not submitted to GEO partially characterized antibody ENCFF983MSP bed narrowPeak optimal idr thresholded peaks ENCSR117CHD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-HOMEZ-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF343WCZ, ENCFF722ULF, ENCFF856NOU 450779 ENCODE Processing Pipeline 7ef745d04ab3f726e6605f838187bf7a https://www.encodeproject.org/files/ENCFF983MSP/@@download/ENCFF983MSP.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF455YHJ bed narrowPeak optimal idr thresholded peaks ENCSR192AFN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens PAX8-human DNA False 2017-11-30 ENCODE 1, 2 ENCFF001TDO, ENCFF268ECX, ENCFF350LWS, ENCFF769CZK 73718 ENCODE Processing Pipeline 2598e2b4d1582b2d4fd97e93d48f9d08 https://www.encodeproject.org/files/ENCFF455YHJ/@@download/ENCFF455YHJ.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity experiment not submitted to GEO ENCFF282SXB bed narrowPeak optimal idr thresholded peaks ENCSR949IWY ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens PAX8-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF014SMM, ENCFF291LKR, ENCFF371FPA 52089 ENCODE Processing Pipeline 35d8b5977ee67e6d987d5b8a11f091b9 https://www.encodeproject.org/files/ENCFF282SXB/@@download/ENCFF282SXB.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF994CIT bed narrowPeak optimal idr thresholded peaks ENCSR988ZSI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-RERE-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF216KHO, ENCFF579PAC, ENCFF752TYG 214891 ENCODE Processing Pipeline b7bb80612164aea6a992366b2378b2da https://www.encodeproject.org/files/ENCFF994CIT/@@download/ENCFF994CIT.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF440JJW bed narrowPeak optimal idr thresholded peaks ENCSR107GRP ChIP-seq EFO:0002067 K562 cell line Homo sapiens MLLT1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF743CIS, ENCFF768MUF, ENCFF948VWR 474010 ENCODE Processing Pipeline 8e35e0276097b2e8621be227dd056368 https://www.encodeproject.org/files/ENCFF440JJW/@@download/ENCFF440JJW.bed.gz hg19 released ENCFF338ZJP bed narrowPeak optimal idr thresholded peaks ENCSR616OSG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KLF11-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF589JFZ, ENCFF671LXX, ENCFF770ZZB 193379 ENCODE Processing Pipeline ea0a8c0256e7684e4d6fa2c393c3410f https://www.encodeproject.org/files/ENCFF338ZJP/@@download/ENCFF338ZJP.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF874EVS bed narrowPeak optimal idr thresholded peaks ENCSR331ORD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-CREB1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF269RLS, ENCFF628ATN, ENCFF680TBL 477282 ENCODE Processing Pipeline be71f391e60994a025c0662242be27ff https://www.encodeproject.org/files/ENCFF874EVS/@@download/ENCFF874EVS.bed.gz hg19 released control low read depth, missing genetic modification characterization characterization(s) pending review ENCFF410EDG bed narrowPeak optimal idr thresholded peaks ENCSR113LAS ChIP-seq EFO:0002067 K562 cell line Homo sapiens MTA2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF094YIY, ENCFF186VAU, ENCFF501DZY 259215 ENCODE Processing Pipeline dcb6e6f91e09c643f12408b087773474 https://www.encodeproject.org/files/ENCFF410EDG/@@download/ENCFF410EDG.bed.gz hg19 released low read depth ENCFF679ITJ bed narrowPeak optimal idr thresholded peaks ENCSR990AZC ChIP-seq EFO:0002067 K562 cell line Homo sapiens MCM3-human DNA False 2016-09-27 ENCODE 1, 2 ENCFF001TDO, ENCFF260MCD, ENCFF262RPX, ENCFF530ETK 53864 ENCODE Processing Pipeline 4809a1434ba955b7c1164f4b9f572b67 https://www.encodeproject.org/files/ENCFF679ITJ/@@download/ENCFF679ITJ.bed.gz hg19 released ENCFF408FQC bed narrowPeak optimal idr thresholded peaks ENCSR876GXA ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBTB33-human DNA False 2016-06-23 ENCODE 3, 4 ENCFF001TDO, ENCFF108BVL, ENCFF388RWJ, ENCFF778NFD 974557 ENCODE Processing Pipeline a9f515a615c9736874c5b02b3ef2f106 https://www.encodeproject.org/files/ENCFF408FQC/@@download/ENCFF408FQC.bed.gz hg19 released low read depth ENCFF958KNK bed narrowPeak optimal idr thresholded peaks ENCSR028UIU ChIP-seq EFO:0002067 K562 cell line Homo sapiens ATF3-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF034DTN, ENCFF164BVB, ENCFF263MQY 1074003 ENCODE Processing Pipeline 9766f5508a9d7c4285265a20084a2850 https://www.encodeproject.org/files/ENCFF958KNK/@@download/ENCFF958KNK.bed.gz hg19 released mild to moderate bottlenecking, inconsistent platforms, moderate library complexity experiment not submitted to GEO ENCFF763XLN bed narrowPeak optimal idr thresholded peaks ENCSR412ZDC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-AHR-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF447QUH, ENCFF643WIF, ENCFF988PCN 208740 ENCODE Processing Pipeline 8ad14bba8001263317e4d936a270504a https://www.encodeproject.org/files/ENCFF763XLN/@@download/ENCFF763XLN.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF249EZR bed narrowPeak optimal idr thresholded peaks ENCSR863KUB ChIP-seq EFO:0002067 K562 cell line Homo sapiens TCF7-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF086FEW, ENCFF127VYL, ENCFF588ZYR 107201 ENCODE Processing Pipeline e6d734cd2dddbdb65175f4aac5d619c6 https://www.encodeproject.org/files/ENCFF249EZR/@@download/ENCFF249EZR.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption missing control alignments ENCFF922TDM bed narrowPeak optimal idr thresholded peaks ENCSR349TZO ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOA2-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF162LKJ, ENCFF550GTF, ENCFF917NDP 75060 ENCODE Processing Pipeline 41ea12a0fe93278e96a648164c7ae3b8 https://www.encodeproject.org/files/ENCFF922TDM/@@download/ENCFF922TDM.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF411DIA bed narrowPeak optimal idr thresholded peaks ENCSR671GFC ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-TAF7-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF827LZB, ENCFF869TGI, ENCFF963EUU 225811 ENCODE Processing Pipeline 43ce1eff00a6b8021cc73f72e80b62a5 https://www.encodeproject.org/files/ENCFF411DIA/@@download/ENCFF411DIA.bed.gz hg19 released missing genetic modification characterization ENCFF269EMM bed narrowPeak optimal idr thresholded peaks ENCSR633EIC ChIP-seq EFO:0002067 K562 cell line Homo sapiens 3xFLAG-PBX2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF539OHR, ENCFF597QZY, ENCFF906WAQ 71060 ENCODE Processing Pipeline af53a063019d668f2053979d501052f0 https://www.encodeproject.org/files/ENCFF269EMM/@@download/ENCFF269EMM.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review ENCFF653MIQ bed narrowPeak optimal idr thresholded peaks ENCSR822AHX ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IKZF2-human DNA False 2017-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF015LAS, ENCFF121LDE, ENCFF658QMA 951360 ENCODE Processing Pipeline 1f78aaf05fbfc895c4ff5d21f048885f https://www.encodeproject.org/files/ENCFF653MIQ/@@download/ENCFF653MIQ.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF909FRA bed narrowPeak optimal idr thresholded peaks ENCSR041XML ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SRF-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF172UOB, ENCFF467WTS, ENCFF500GHH 355186 ENCODE Processing Pipeline 61fffb75b6f30e6189a0319942b70dab https://www.encodeproject.org/files/ENCFF909FRA/@@download/ENCFF909FRA.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF921WMN bed narrowPeak optimal idr thresholded peaks ENCSR352BJL ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF318-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF050TDD, ENCFF244YZX, ENCFF898ILE 169082 ENCODE Processing Pipeline 20b395a93cc75d57adb1473906fc3ec0 https://www.encodeproject.org/files/ENCFF921WMN/@@download/ENCFF921WMN.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF339FFC bed narrowPeak optimal idr thresholded peaks ENCSR680UQE ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IKZF2-human DNA False 2017-02-21 ENCODE 1, 2 ENCFF001TDO, ENCFF379VSR, ENCFF431GOQ, ENCFF515FMR 878892 ENCODE Processing Pipeline d96de9a2859401cbdc832a84bc103e4d https://www.encodeproject.org/files/ENCFF339FFC/@@download/ENCFF339FFC.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF076IFG bed narrowPeak optimal idr thresholded peaks ENCSR004GKA ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZEB2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF101SDV, ENCFF333ULN, ENCFF524RDY 429072 ENCODE Processing Pipeline 2685a6bf489be07bdc3b2f2d29d997cd https://www.encodeproject.org/files/ENCFF076IFG/@@download/ENCFF076IFG.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF132BFM bed narrowPeak optimal idr thresholded peaks ENCSR445ACU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SOX13-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF174SPG, ENCFF557TVO, ENCFF755OPP 205039 ENCODE Processing Pipeline d8eacef275ec089ec50959bc1c078ffc https://www.encodeproject.org/files/ENCFF132BFM/@@download/ENCFF132BFM.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF543UJL bed narrowPeak optimal idr thresholded peaks ENCSR445ACU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SOX13-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF628KQC, ENCFF636BWE, ENCFF682ZLL 181988 ENCODE Processing Pipeline d5d787e0e7925ce0d9da6e778090b957 https://www.encodeproject.org/files/ENCFF543UJL/@@download/ENCFF543UJL.bed.gz hg19 archived low read depth, antibody characterized with exemption ENCFF971VJZ bed narrowPeak optimal idr thresholded peaks ENCSR850WUE ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBM15-human DNA SDS formaldehyde False 2018-01-19 ENCODE 1, 2 ENCFF001TDO, ENCFF212ABS, ENCFF325TSC, ENCFF764ZHV 7462 ENCODE Processing Pipeline b168b2de611fd90e36c8a89235a80191 https://www.encodeproject.org/files/ENCFF971VJZ/@@download/ENCFF971VJZ.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity experiment not submitted to GEO insufficient read depth ENCFF874QUM bed narrowPeak optimal idr thresholded peaks ENCSR343IFJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens CC2D1A-human DNA False 2017-06-29 ENCODE 1, 2 ENCFF001TDO, ENCFF051PEB, ENCFF299WDT, ENCFF759MGA 486014 ENCODE Processing Pipeline 75a755f8a4bc844744a9df818b13c184 https://www.encodeproject.org/files/ENCFF874QUM/@@download/ENCFF874QUM.bed.gz hg19 released mild to moderate bottlenecking ENCFF370ENX bed narrowPeak optimal idr thresholded peaks ENCSR796ITY ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFIC-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF292SNP, ENCFF351DKB, ENCFF754CMK 878417 ENCODE Processing Pipeline c5c8948cb0e3434da4fa620f09ef9812 https://www.encodeproject.org/files/ENCFF370ENX/@@download/ENCFF370ENX.bed.gz hg19 released mild to moderate bottlenecking, inconsistent platforms ENCFF925DJG bed narrowPeak optimal idr thresholded peaks ENCSR953DVM ChIP-seq EFO:0002067 K562 cell line Homo sapiens E2F8-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF133EYO, ENCFF696BJA, ENCFF904YUH 199330 ENCODE Processing Pipeline a54bfc70ca37fae47890b441013320dd https://www.encodeproject.org/files/ENCFF925DJG/@@download/ENCFF925DJG.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF526EEI bed narrowPeak optimal idr thresholded peaks ENCSR975SSR ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ELF1-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF074NKQ, ENCFF241QBV, ENCFF769RKU 313782 ENCODE Processing Pipeline 1f4cf632566898df354da40c0e111751 https://www.encodeproject.org/files/ENCFF526EEI/@@download/ENCFF526EEI.bed.gz hg19 released missing genetic modification characterization ENCFF886VSU bed narrowPeak optimal idr thresholded peaks ENCSR948VFL ChIP-seq EFO:0002067 K562 cell line Homo sapiens IKZF1-human DNA False 2016-10-11 ENCODE 1, 2 ENCFF001TDO, ENCFF165OLG, ENCFF320JKZ, ENCFF519QZC 870116 ENCODE Processing Pipeline 75a920f51d6077f2f65ffc7fadadfe2e https://www.encodeproject.org/files/ENCFF886VSU/@@download/ENCFF886VSU.bed.gz hg19 released ENCFF278ONE bed narrowPeak optimal idr thresholded peaks ENCSR542WJU ChIP-seq EFO:0002067 K562 cell line Homo sapiens MCM7-human DNA False 2016-09-27 ENCODE 1, 2 ENCFF001TDO, ENCFF165WWF, ENCFF232KWI, ENCFF298ANN 42864 ENCODE Processing Pipeline f001f8218fe092df94f9780e7635d9ad https://www.encodeproject.org/files/ENCFF278ONE/@@download/ENCFF278ONE.bed.gz hg19 released ENCFF778RMG bed narrowPeak optimal idr thresholded peaks ENCSR532KTI ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-GTF2E2-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF138CUL, ENCFF373TEW, ENCFF796SSH 253646 ENCODE Processing Pipeline b10e9ebc53d80fd09275ddc64ec080fb https://www.encodeproject.org/files/ENCFF778RMG/@@download/ENCFF778RMG.bed.gz hg19 released control low read depth, missing genetic modification characterization ENCFF560CMG bed narrowPeak optimal idr thresholded peaks ENCSR183AXJ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNRNPUL1-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF229FTN, ENCFF456VQO, ENCFF946JBN 66668 ENCODE Processing Pipeline 3c99421784619151bea246fef5f923fc https://www.encodeproject.org/files/ENCFF560CMG/@@download/ENCFF560CMG.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF566WSG bed narrowPeak optimal idr thresholded peaks ENCSR382MOM ChIP-seq UBERON:0002107 liver tissue Homo sapiens YY1-human DNA False 2016-03-31 ENCODE 1, 2 ENCFF001TDO, ENCFF079CJA, ENCFF086YFF, ENCFF884TKH 1009004 ENCODE Processing Pipeline 1bd5d50abbe1d858675db04c9d86fd4a https://www.encodeproject.org/files/ENCFF566WSG/@@download/ENCFF566WSG.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample ENCFF603OCV bed narrowPeak optimal idr thresholded peaks ENCSR382MOM ChIP-seq UBERON:0002107 liver tissue Homo sapiens YY1-human DNA False 2016-03-31 ENCODE 1, 2 ENCFF001TDO, ENCFF061SPB, ENCFF335ZZX, ENCFF800NJQ 875622 ENCODE Processing Pipeline d4db56cba78dbb66b37446153ce0a506 https://www.encodeproject.org/files/ENCFF603OCV/@@download/ENCFF603OCV.bed.gz hg19 archived mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample ENCFF712NYW bed narrowPeak optimal idr thresholded peaks ENCSR103SZL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TFAP4-human DNA False 2016-03-11 ENCODE 1, 2 ENCFF001TDO, ENCFF017KJV, ENCFF030MOS, ENCFF828EGG 502010 ENCODE Processing Pipeline 3b7c8a8fa1d88fb49d4d31be7971c323 https://www.encodeproject.org/files/ENCFF712NYW/@@download/ENCFF712NYW.bed.gz hg19 released borderline replicate concordance, low read depth ENCFF184XYF bed narrowPeak optimal idr thresholded peaks ENCSR103SZL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TFAP4-human DNA False 2016-03-11 ENCODE 1, 2 ENCFF001TDO, ENCFF175OWR, ENCFF296FGF, ENCFF403CMY 446347 ENCODE Processing Pipeline 7667cee2f761f2918dac39d02674348a https://www.encodeproject.org/files/ENCFF184XYF/@@download/ENCFF184XYF.bed.gz hg19 archived borderline replicate concordance, low read depth ENCFF447QUG bed narrowPeak optimal idr thresholded peaks ENCSR591CCL ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF512-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF188IJE, ENCFF357VCS, ENCFF530EDL 434983 ENCODE Processing Pipeline dccf07316b700c70e29bc268987e06b7 https://www.encodeproject.org/files/ENCFF447QUG/@@download/ENCFF447QUG.bed.gz hg19 released missing genetic modification characterization ENCFF144PPR bed narrowPeak optimal idr thresholded peaks ENCSR837EYC ChIP-seq EFO:0002067 K562 cell line Homo sapiens NRF1-human DNA False 2016-06-16 ENCODE 1, 2 ENCFF001TDO, ENCFF559ITE, ENCFF606MZK, ENCFF892HJT 370811 ENCODE Processing Pipeline ed341ef382b1729a4467c26b9d7afc00 https://www.encodeproject.org/files/ENCFF144PPR/@@download/ENCFF144PPR.bed.gz hg19 released low read depth, moderate library complexity ENCFF854BPP bed narrowPeak optimal idr thresholded peaks ENCSR369NGL ChIP-seq EFO:0007950 GM23338 induced pluripotent stem cell line Homo sapiens POLR2AphosphoS5-human DNA False 2016-08-09 ENCODE 1, 2 ENCFF001TDO, ENCFF529XXM, ENCFF687WTU, ENCFF987INA 526110 ENCODE Processing Pipeline 387838ea26f2691bffe6e0e4c7833712 https://www.encodeproject.org/files/ENCFF854BPP/@@download/ENCFF854BPP.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF690DDP bed narrowPeak optimal idr thresholded peaks ENCSR369NGL ChIP-seq EFO:0007950 GM23338 induced pluripotent stem cell line Homo sapiens POLR2AphosphoS5-human DNA False 2016-08-09 ENCODE 1, 2 ENCFF001TDO, ENCFF171YNB, ENCFF263YLX, ENCFF618FBU 490398 ENCODE Processing Pipeline 6707f2d1389cc2c8e7c8e9d240c4bfbf https://www.encodeproject.org/files/ENCFF690DDP/@@download/ENCFF690DDP.bed.gz hg19 archived low read depth, antibody characterized with exemption ENCFF788LSH bed narrowPeak optimal idr thresholded peaks ENCSR860UHK ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CBFB-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF273ZDS, ENCFF389NMB, ENCFF838ABE 324597 ENCODE Processing Pipeline 63ff827b2e1cbb2c9e897d6d4273086c https://www.encodeproject.org/files/ENCFF788LSH/@@download/ENCFF788LSH.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF266KLW bed narrowPeak optimal idr thresholded peaks ENCSR338MMB ChIP-seq UBERON:0002107 liver tissue Homo sapiens NR2F2-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF348QEP, ENCFF525BTB, ENCFF617HUR 507212 ENCODE Processing Pipeline 2732be2073a35bea7c8e899b526ee7f5 https://www.encodeproject.org/files/ENCFF266KLW/@@download/ENCFF266KLW.bed.gz hg19 released mild to moderate bottlenecking, low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF133YMX bed narrowPeak optimal idr thresholded peaks ENCSR338MMB ChIP-seq UBERON:0002107 liver tissue Homo sapiens NR2F2-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF150BYS, ENCFF495GMC, ENCFF775AMH 428177 ENCODE Processing Pipeline a5fe216065e927a3391b4d54d418aa78 https://www.encodeproject.org/files/ENCFF133YMX/@@download/ENCFF133YMX.bed.gz hg19 archived mild to moderate bottlenecking, low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF177FZU bed narrowPeak optimal idr thresholded peaks ENCSR848YWD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZMYM3-human DNA False 2016-09-23 ENCODE 1, 2 ENCFF001TDO, ENCFF136ODS, ENCFF575WAU, ENCFF629JUA 201045 ENCODE Processing Pipeline f15f87c10854c7ddee174962575bc02e https://www.encodeproject.org/files/ENCFF177FZU/@@download/ENCFF177FZU.bed.gz hg19 released low read depth, antibody characterized with exemption, mixed read lengths ENCFF003GNY bed narrowPeak optimal idr thresholded peaks ENCSR853ADA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NRF1-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF436LYU, ENCFF518DDL, ENCFF533OLJ 280925 ENCODE Processing Pipeline c43e409d329170937ef998c5d5e77be0 https://www.encodeproject.org/files/ENCFF003GNY/@@download/ENCFF003GNY.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF916OSQ bed narrowPeak optimal idr thresholded peaks ENCSR415AEB ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF48-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF060WBX, ENCFF525HIO, ENCFF530ZYM 611201 ENCODE Processing Pipeline 11f0622c11f0e5b0170cab9af65aeabf https://www.encodeproject.org/files/ENCFF916OSQ/@@download/ENCFF916OSQ.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF059ONJ bed narrowPeak optimal idr thresholded peaks ENCSR390VGH ChIP-seq EFO:0002067 K562 cell line Homo sapiens MNT-human DNA False 2017-01-27 ENCODE 1, 2 ENCFF001TDO, ENCFF191KTX, ENCFF260JMM, ENCFF431KXB 698405 ENCODE Processing Pipeline b90c66a28237946beae947f6c6d02cdd https://www.encodeproject.org/files/ENCFF059ONJ/@@download/ENCFF059ONJ.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF686LJE bed narrowPeak optimal idr thresholded peaks ENCSR427BBI ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MLLT1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF142BLA, ENCFF427GLG, ENCFF960ASZ 75751 ENCODE Processing Pipeline 2e59e555172d67a4f1c4cf2637a57378 https://www.encodeproject.org/files/ENCFF686LJE/@@download/ENCFF686LJE.bed.gz hg19 released ENCFF447FPV bed narrowPeak optimal idr thresholded peaks ENCSR231YFE ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZBTB33-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF515ZCN, ENCFF613ONR, ENCFF684BFS 172266 ENCODE Processing Pipeline b97a0af53cba492b881017ed8ba0ea15 https://www.encodeproject.org/files/ENCFF447FPV/@@download/ENCFF447FPV.bed.gz hg19 released borderline replicate concordance ENCFF587EOD bed narrowPeak optimal idr thresholded peaks ENCSR006WUS ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NEUROD1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF013MRQ, ENCFF503OBN, ENCFF512ZVD 119114 ENCODE Processing Pipeline 05c041dc76a925fa1f284c6192e9941c https://www.encodeproject.org/files/ENCFF587EOD/@@download/ENCFF587EOD.bed.gz hg19 released borderline replicate concordance, low read depth experiment not submitted to GEO partially characterized antibody ENCFF693JHE bed narrowPeak optimal idr thresholded peaks ENCSR903ELW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CREM-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF029FHZ, ENCFF467KJE, ENCFF997CFJ 519466 ENCODE Processing Pipeline d6588d01138beb53cf9323ee986d3fd8 https://www.encodeproject.org/files/ENCFF693JHE/@@download/ENCFF693JHE.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF228PSB bed narrowPeak optimal idr thresholded peaks ENCSR632DCH ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ATF3-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF281ART, ENCFF303DKR, ENCFF435TZX 799671 ENCODE Processing Pipeline 054f28f450d6d4e35a9993fce120ae4c https://www.encodeproject.org/files/ENCFF228PSB/@@download/ENCFF228PSB.bed.gz hg19 released mild to moderate bottlenecking, low read depth, missing genetic modification characterization, moderate library complexity ENCFF539WLH bed narrowPeak optimal idr thresholded peaks ENCSR820GND ChIP-seq EFO:0002067 K562 cell line Homo sapiens RNF2-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF232HEV, ENCFF696NDZ, ENCFF813HMN 128344 ENCODE Processing Pipeline 2a1c65eb617ccef1f2444da1282bf8b0 https://www.encodeproject.org/files/ENCFF539WLH/@@download/ENCFF539WLH.bed.gz hg19 released low read depth ENCFF233DOW bed narrowPeak optimal idr thresholded peaks ENCSR635OSG ChIP-seq UBERON:0002107 liver tissue Homo sapiens RAD21-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF501YCY, ENCFF654DFC, ENCFF800RTH 385302 ENCODE Processing Pipeline 4a40fd4a80e95f2166f4d6e2694c136a https://www.encodeproject.org/files/ENCFF233DOW/@@download/ENCFF233DOW.bed.gz hg19 released low read length, antibody characterized with exemption, inconsistent target of control experiment experiment not submitted to GEO missing input control ENCFF515VAF bed narrowPeak optimal idr thresholded peaks ENCSR072GJV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-HMG20A-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF336VHS, ENCFF381ZGO, ENCFF620TDM 429154 ENCODE Processing Pipeline 4c0c30001d9d56ec1d5a6f6d247de5ee https://www.encodeproject.org/files/ENCFF515VAF/@@download/ENCFF515VAF.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF804RUY bed narrowPeak optimal idr thresholded peaks ENCSR792MZV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-MYRF-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF015GGC, ENCFF023ZKG, ENCFF133TBZ 125949 ENCODE Processing Pipeline 8919853879d9fd8847317a9f728a4010 https://www.encodeproject.org/files/ENCFF804RUY/@@download/ENCFF804RUY.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF957YKG bed narrowPeak optimal idr thresholded peaks ENCSR501NSC ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZSCAN26-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF091FKF, ENCFF679NLN, ENCFF984CKR 50316 ENCODE Processing Pipeline 20272faa2f2f839beb3ed467fe083965 https://www.encodeproject.org/files/ENCFF957YKG/@@download/ENCFF957YKG.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF366UBB bed narrowPeak optimal idr thresholded peaks ENCSR798ILC ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOR1-human DNA False 2016-11-30 ENCODE 1, 2 ENCFF001TDO, ENCFF649STG, ENCFF733BAD, ENCFF810EAC 523344 ENCODE Processing Pipeline b70248917b378e34aa1952f19b956f77 https://www.encodeproject.org/files/ENCFF366UBB/@@download/ENCFF366UBB.bed.gz hg19 released low read depth ENCFF108ZTV bed narrowPeak optimal idr thresholded peaks ENCSR917QNE ChIP-seq UBERON:0002107 liver tissue Homo sapiens RAD21-human DNA False 2016-10-12 ENCODE 1, 2 ENCFF001TDO, ENCFF044MZF, ENCFF727LYG, ENCFF846YGT 1008002 ENCODE Processing Pipeline 524494eb4a5d531f9c8a7c43202a4027 https://www.encodeproject.org/files/ENCFF108ZTV/@@download/ENCFF108ZTV.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample ENCFF675ZHC bed narrowPeak optimal idr thresholded peaks ENCSR634ZGP ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens UBTF-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF149RTO, ENCFF312HIY, ENCFF607MHD 19622 ENCODE Processing Pipeline 9c7c4f4820d59882e08fa26874ded8ba https://www.encodeproject.org/files/ENCFF675ZHC/@@download/ENCFF675ZHC.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity ENCFF173VKA bed narrowPeak optimal idr thresholded peaks ENCSR125ZYC ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens eGFP-KLF9-human DNA False 2016-06-13 ENCODE 3, 4 ENCFF001TDO, ENCFF328SGB, ENCFF517BWM, ENCFF667SOI 295179 ENCODE Processing Pipeline 458c3469b2c62eeda6604910e45cbd66 https://www.encodeproject.org/files/ENCFF173VKA/@@download/ENCFF173VKA.bed.gz hg19 released control low read depth, low read depth, missing genetic modification characterization ENCFF817RST bed narrowPeak optimal idr thresholded peaks ENCSR702BYX ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NFIB-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF081YIR, ENCFF833GDZ, ENCFF921PXY 427284 ENCODE Processing Pipeline 50257909e3bcb342ebf3476e6849537a https://www.encodeproject.org/files/ENCFF817RST/@@download/ENCFF817RST.bed.gz hg19 released ENCFF693FRV bed narrowPeak optimal idr thresholded peaks ENCSR196HGZ ChIP-seq UBERON:0002107 liver tissue Homo sapiens JUND-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF063GQS, ENCFF567PTY, ENCFF755MSZ 394305 ENCODE Processing Pipeline 433d0c39ff3942ba18f059f8a4b159d1 https://www.encodeproject.org/files/ENCFF693FRV/@@download/ENCFF693FRV.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption biological replicates with identical biosample ENCFF340PPI bed narrowPeak optimal idr thresholded peaks ENCSR695EQB ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF24-human DNA False 2017-01-27 ENCODE 1, 2 ENCFF001TDO, ENCFF309SZA, ENCFF720BVJ, ENCFF924XOY 530134 ENCODE Processing Pipeline 9a398398d2c9211d4896d977bf907b72 https://www.encodeproject.org/files/ENCFF340PPI/@@download/ENCFF340PPI.bed.gz hg19 released antibody characterized with exemption ENCFF884GAH bed narrowPeak optimal idr thresholded peaks ENCSR094ZCF ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens eGFP-CEBPG-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF223YLF, ENCFF381BVK, ENCFF482DDO 234617 ENCODE Processing Pipeline 16716888547d8fbfce198b63ad9fb09b https://www.encodeproject.org/files/ENCFF884GAH/@@download/ENCFF884GAH.bed.gz hg19 released control low read depth, missing genetic modification characterization ENCFF241TBP bed narrowPeak optimal idr thresholded peaks ENCSR788RSW ChIP-seq EFO:0002067 K562 cell line Homo sapiens SOX6-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF221LMV, ENCFF669NWG, ENCFF954EOW 662988 ENCODE Processing Pipeline ddfe5ef7a5a81e0d8353f3f421ca1c7b https://www.encodeproject.org/files/ENCFF241TBP/@@download/ENCFF241TBP.bed.gz hg19 released mild to moderate bottlenecking ENCFF872JJJ bed narrowPeak optimal idr thresholded peaks ENCSR325RLL ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2B-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF230UQS, ENCFF255HKN, ENCFF729LTY 333967 ENCODE Processing Pipeline 4fa731cb3c8d39c1c5bd2b21cd149768 https://www.encodeproject.org/files/ENCFF872JJJ/@@download/ENCFF872JJJ.bed.gz hg19 released low read depth experiment not submitted to GEO partially characterized antibody ENCFF851HUJ bed narrowPeak optimal idr thresholded peaks ENCSR994YLZ ChIP-seq UBERON:0002107 liver tissue Homo sapiens YY1-human DNA False 2016-03-31 ENCODE 1, 2 ENCFF001TDO, ENCFF435XEZ, ENCFF683XUE, ENCFF917NOB 536405 ENCODE Processing Pipeline b5663d4401ea20f7753e2b2485e7e4ae https://www.encodeproject.org/files/ENCFF851HUJ/@@download/ENCFF851HUJ.bed.gz hg19 released low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF214QUX bed narrowPeak optimal idr thresholded peaks ENCSR994YLZ ChIP-seq UBERON:0002107 liver tissue Homo sapiens YY1-human DNA False 2016-03-31 ENCODE 1, 2 ENCFF001TDO, ENCFF396QYK, ENCFF579AYO, ENCFF642PNJ 501080 ENCODE Processing Pipeline 7371981ddd260e640ca4863cbb1d94bd https://www.encodeproject.org/files/ENCFF214QUX/@@download/ENCFF214QUX.bed.gz hg19 archived low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF493ABN bed narrowPeak optimal idr thresholded peaks ENCSR998AJK ChIP-seq EFO:0002067 K562 cell line Homo sapiens NRF1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF113EKC, ENCFF288BMB, ENCFF406JKC 684973 ENCODE Processing Pipeline d5fff8c03ee7b8067da264cb490f4327 https://www.encodeproject.org/files/ENCFF493ABN/@@download/ENCFF493ABN.bed.gz hg19 released mild to moderate bottlenecking ENCFF809MSQ bed narrowPeak optimal idr thresholded peaks ENCSR998AJK ChIP-seq EFO:0002067 K562 cell line Homo sapiens NRF1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF138RWJ, ENCFF263SML, ENCFF978MYZ 603740 ENCODE Processing Pipeline c5c300d8c24705b1cf027b0ddc4468af https://www.encodeproject.org/files/ENCFF809MSQ/@@download/ENCFF809MSQ.bed.gz hg19 archived mild to moderate bottlenecking ENCFF887LHM bed narrowPeak optimal idr thresholded peaks ENCSR617RSQ ChIP-seq EFO:0002074 PC-3 cell line Homo sapiens EZH2phosphoT487-human DNA False 2018-02-06 ENCODE 1, 2 ENCFF001TDO, ENCFF582UCY, ENCFF724ZSR, ENCFF853YEV 72796 ENCODE Processing Pipeline 31cf866fcc209e6d4489baee92e9fcd2 https://www.encodeproject.org/files/ENCFF887LHM/@@download/ENCFF887LHM.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF074EZL bed narrowPeak optimal idr thresholded peaks ENCSR085QEV ChIP-seq EFO:0002067 K562 cell line Homo sapiens NBN-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF021DHZ, ENCFF032UMZ, ENCFF650HMR 321865 ENCODE Processing Pipeline 7e52fb41f5a8121abd5a3b5a07f42747 https://www.encodeproject.org/files/ENCFF074EZL/@@download/ENCFF074EZL.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF165BCW bed narrowPeak optimal idr thresholded peaks ENCSR910JAI ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOR1-human DNA False 2016-11-30 ENCODE 1, 2 ENCFF001TDO, ENCFF584ZGO, ENCFF620EUP, ENCFF675VGK 472483 ENCODE Processing Pipeline 400dadc1bad41dafe27291e51353005f https://www.encodeproject.org/files/ENCFF165BCW/@@download/ENCFF165BCW.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF328IOZ bed narrowPeak optimal idr thresholded peaks ENCSR886KKK ChIP-seq CL:0000103 bipolar neuron in vitro differentiated cells Homo sapiens doxycycline hyclate 0.5 μg/mL 4 day EZH2phosphoT487-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF488KHJ, ENCFF625OET, ENCFF957ZSV 682251 ENCODE Processing Pipeline d07cb5c747bbb0c732e3f46f2e793a4b https://www.encodeproject.org/files/ENCFF328IOZ/@@download/ENCFF328IOZ.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption NTR biosample ENCFF203REX bed narrowPeak optimal idr thresholded peaks ENCSR872BOU ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens FOXK2-human DNA False 2016-11-18 ENCODE 1, 2 ENCFF001TDO, ENCFF355FZF, ENCFF628SZN, ENCFF898EEY 40876 ENCODE Processing Pipeline 42a3aa6efd4c39b384ad98bd78994d4b https://www.encodeproject.org/files/ENCFF203REX/@@download/ENCFF203REX.bed.gz hg19 released mild to moderate bottlenecking ENCFF484WVM bed narrowPeak optimal idr thresholded peaks ENCSR826YMT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-SMAD4-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF135KRY, ENCFF771RJQ, ENCFF928PLM 763626 ENCODE Processing Pipeline 68903538af7a7665b4f666544f6e9cb9 https://www.encodeproject.org/files/ENCFF484WVM/@@download/ENCFF484WVM.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF235ZZP bed narrowPeak optimal idr thresholded peaks ENCSR115BBC ChIP-seq EFO:0002067 K562 cell line Homo sapiens ASH1L-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF216JOG, ENCFF505CXS, ENCFF756HQJ 129016 ENCODE Processing Pipeline d8ef3cc4d24c5415e9a82592ed82fb4d https://www.encodeproject.org/files/ENCFF235ZZP/@@download/ENCFF235ZZP.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF476TIZ bed narrowPeak optimal idr thresholded peaks ENCSR889GGV ChIP-seq CL:0000103 bipolar neuron in vitro differentiated cells Homo sapiens doxycycline hyclate 0.5 μg/mL 4 day POLR2AphosphoS5-human DNA False 2016-10-12 ENCODE 1, 2 ENCFF001TDO, ENCFF142WNN, ENCFF342UVO, ENCFF494HET 814178 ENCODE Processing Pipeline 074d9fbb58b000a0b57810f7030046fa https://www.encodeproject.org/files/ENCFF476TIZ/@@download/ENCFF476TIZ.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF501XJA bed narrowPeak optimal idr thresholded peaks ENCSR839SFJ ChIP-seq CL:0000103 bipolar neuron in vitro differentiated cells Homo sapiens doxycycline hyclate 0.5 μg/mL 4 day SMARCA4-human DNA False 2016-11-02 ENCODE 1, 2 ENCFF001TDO, ENCFF151FHL, ENCFF664WRF, ENCFF764LKV 907481 ENCODE Processing Pipeline f4b607f284f03be176612d624cb7a16b https://www.encodeproject.org/files/ENCFF501XJA/@@download/ENCFF501XJA.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF862SRI bed narrowPeak optimal idr thresholded peaks ENCSR736BUG ChIP-seq UBERON:0002107 liver tissue Homo sapiens EGR1-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF484TJY, ENCFF560WHY, ENCFF876JTC 350114 ENCODE Processing Pipeline 1c6811d4053f35decc7973fcf5f8f7b5 https://www.encodeproject.org/files/ENCFF862SRI/@@download/ENCFF862SRI.bed.gz hg19 released low read depth, antibody characterized with exemption biological replicates with identical biosample, experiment not submitted to GEO ENCFF189HPG bed narrowPeak optimal idr thresholded peaks ENCSR098XMN ChIP-seq UBERON:0002107 liver tissue Homo sapiens RXRA-human DNA False 2018-02-06 ENCODE 1, 2 ENCFF001TDO, ENCFF183ZZZ, ENCFF255SKA, ENCFF515RCQ 1202043 ENCODE Processing Pipeline c170b33e7b6fce92b71adc330e097600 https://www.encodeproject.org/files/ENCFF189HPG/@@download/ENCFF189HPG.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample, experiment not submitted to GEO ENCFF141LEI bed narrowPeak optimal idr thresholded peaks ENCSR549NPZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CBX3-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF069WNS, ENCFF685NUU, ENCFF981HQF 8524 ENCODE Processing Pipeline 58281cd2d3fdcbce6474dcc7abc61e32 https://www.encodeproject.org/files/ENCFF141LEI/@@download/ENCFF141LEI.bed.gz hg19 released low read depth ENCFF359QCN bed narrowPeak optimal idr thresholded peaks ENCSR786OQY ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBTB5-human DNA False 2017-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF477OXP, ENCFF813QIG, ENCFF901ECC 93421 ENCODE Processing Pipeline 7d36f0239138fa8ed42599cdb4431be9 https://www.encodeproject.org/files/ENCFF359QCN/@@download/ENCFF359QCN.bed.gz hg19 released antibody characterized with exemption ENCFF972LPT bed narrowPeak optimal idr thresholded peaks ENCSR076YPO ChIP-seq EFO:0002067 K562 cell line Homo sapiens RNF2-human DNA False 2016-03-30 ENCODE 1, 2 ENCFF001TDO, ENCFF576LFG, ENCFF820ZTK, ENCFF844TQX 305539 ENCODE Processing Pipeline 1563fb6abad7b6e01e1a4b592835b343 https://www.encodeproject.org/files/ENCFF972LPT/@@download/ENCFF972LPT.bed.gz hg19 released borderline replicate concordance, low read depth ENCFF864YJE bed narrowPeak optimal idr thresholded peaks ENCSR096IIB ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ETV5-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF461ILI, ENCFF719AHJ, ENCFF770RZT 531822 ENCODE Processing Pipeline a952095c309e04251a39ad29756b5fc1 https://www.encodeproject.org/files/ENCFF864YJE/@@download/ENCFF864YJE.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF802CPZ bed narrowPeak optimal idr thresholded peaks ENCSR157CEN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF205-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF132YZW, ENCFF875UCR, ENCFF998ZZB 363126 ENCODE Processing Pipeline c1f9b6ec20d7cb89fa9f7c87fb0e497f https://www.encodeproject.org/files/ENCFF802CPZ/@@download/ENCFF802CPZ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF272ULO bed narrowPeak optimal idr thresholded peaks ENCSR490LWA ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-CEBPG-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF183FOU, ENCFF335AYY, ENCFF880AEL 839761 ENCODE Processing Pipeline 29d7e21f3c25f41bd7185514faa49553 https://www.encodeproject.org/files/ENCFF272ULO/@@download/ENCFF272ULO.bed.gz hg19 released missing genetic modification characterization ENCFF807BXT bed narrowPeak optimal idr thresholded peaks ENCSR605YWG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TBX3-human DNA False 2016-11-17 ENCODE 2, 3 ENCFF001TDO, ENCFF075QET, ENCFF210KEP, ENCFF427HUY 124523 ENCODE Processing Pipeline 3b8da53e9d682463032b7d6e78b36a8e https://www.encodeproject.org/files/ENCFF807BXT/@@download/ENCFF807BXT.bed.gz hg19 released antibody characterized with exemption ENCFF574YMJ bed narrowPeak optimal idr thresholded peaks ENCSR238QRG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TBX3-human DNA False 2017-01-31 ENCODE 1, 2 ENCFF001TDO, ENCFF408HFJ, ENCFF447RTB, ENCFF968MAD 283367 ENCODE Processing Pipeline 63c5da4fc3c3ea560d12f4ffd7394112 https://www.encodeproject.org/files/ENCFF574YMJ/@@download/ENCFF574YMJ.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms, antibody characterized with exemption ENCFF341FTO bed narrowPeak optimal idr thresholded peaks ENCSR096LSN ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF311-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF178MEC, ENCFF455KIL, ENCFF525TUF 41683 ENCODE Processing Pipeline 5cc8eac2432cfe85d3b31879fb620df8 https://www.encodeproject.org/files/ENCFF341FTO/@@download/ENCFF341FTO.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF823USP bed narrowPeak optimal idr thresholded peaks ENCSR201GGK ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-NFIL3-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF045CXK, ENCFF716YYO, ENCFF918LPX 653855 ENCODE Processing Pipeline e3e569c9f86d208e4facdfad87406b48 https://www.encodeproject.org/files/ENCFF823USP/@@download/ENCFF823USP.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF513RIQ bed narrowPeak optimal idr thresholded peaks ENCSR764CZW ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF217-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF021SAT, ENCFF589PUL, ENCFF736WSI 393714 ENCODE Processing Pipeline d44225226240074d5eaa115e9fe46731 https://www.encodeproject.org/files/ENCFF513RIQ/@@download/ENCFF513RIQ.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF244ORA bed narrowPeak optimal idr thresholded peaks ENCSR681WHQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ETS1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF338MRR, ENCFF749DAY, ENCFF771MQQ 165448 ENCODE Processing Pipeline 0915fff499818a173ad96b6a1787bbb4 https://www.encodeproject.org/files/ENCFF244ORA/@@download/ENCFF244ORA.bed.gz hg19 released low read length experiment not submitted to GEO partially characterized antibody ENCFF362WUO bed narrowPeak optimal idr thresholded peaks ENCSR485OYR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZBTB25-human DNA False 2018-02-12 ENCODE 1, 2 ENCFF001TDO, ENCFF644ZTR, ENCFF726PBL, ENCFF845VKC 368119 ENCODE Processing Pipeline 1d05a1b40c43946dcca132013bafcce7 https://www.encodeproject.org/files/ENCFF362WUO/@@download/ENCFF362WUO.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF162RSN bed narrowPeak optimal idr thresholded peaks ENCSR701AQS ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF592-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF458XHM, ENCFF824NFX, ENCFF844ATW 146581 ENCODE Processing Pipeline 7926bf331b2624cf38b2085c98494160 https://www.encodeproject.org/files/ENCFF162RSN/@@download/ENCFF162RSN.bed.gz hg19 released antibody characterized with exemption ENCFF624SFC bed narrowPeak optimal idr thresholded peaks ENCSR528PSI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-HLF-human DNA False 2016-10-12 ENCODE 1, 2 ENCFF001TDO, ENCFF008WCZ, ENCFF145MQM, ENCFF181DWV 1124836 ENCODE Processing Pipeline 086f8e2fb4fbd272c66b98b384a2ebf8 https://www.encodeproject.org/files/ENCFF624SFC/@@download/ENCFF624SFC.bed.gz hg19 released control low read depth, missing genetic modification characterization characterization(s) pending review ENCFF116GAH bed narrowPeak optimal idr thresholded peaks ENCSR226QQM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-NFIA-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF483QHT, ENCFF528FVE, ENCFF935DLZ 489976 ENCODE Processing Pipeline 1ee10f2b1a95191139ba1807d397608f https://www.encodeproject.org/files/ENCFF116GAH/@@download/ENCFF116GAH.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF497XOD bed narrowPeak optimal idr thresholded peaks ENCSR797SWM ChIP-seq EFO:0002067 K562 cell line Homo sapiens MITF-human DNA False 2018-01-26 ENCODE 3, 4 ENCFF001TDO, ENCFF420EZA, ENCFF652VBD, ENCFF958FGE 543857 ENCODE Processing Pipeline 0ee41a02ba74c38f647572359038656e https://www.encodeproject.org/files/ENCFF497XOD/@@download/ENCFF497XOD.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF317TMK bed narrowPeak optimal idr thresholded peaks ENCSR712FAM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZSCAN9-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF187DLY, ENCFF262AAT, ENCFF680GWJ 347367 ENCODE Processing Pipeline 024952fb5c33f399ff2230f2324b2c26 https://www.encodeproject.org/files/ENCFF317TMK/@@download/ENCFF317TMK.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF172WZC bed narrowPeak optimal idr thresholded peaks ENCSR553QMC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF7-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF932MXK, ENCFF959BSS, ENCFF982JLX 139478 ENCODE Processing Pipeline 1cfd9eb23e90a2cc62c49a6d12fb602c https://www.encodeproject.org/files/ENCFF172WZC/@@download/ENCFF172WZC.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF433RKB bed narrowPeak optimal idr thresholded peaks ENCSR920ASP ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZFX-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF423GZH, ENCFF487JYD, ENCFF590NAP 422337 ENCODE Processing Pipeline f5ce515799a684a69f3d908d6f5358e2 https://www.encodeproject.org/files/ENCFF433RKB/@@download/ENCFF433RKB.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF679SPF bed narrowPeak optimal idr thresholded peaks ENCSR633OVO ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-RFX3-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF074TSF, ENCFF819ZLV, ENCFF840FIK 105934 ENCODE Processing Pipeline 58f3f1a2b5f9adedbf6f1aee3925c96b https://www.encodeproject.org/files/ENCFF679SPF/@@download/ENCFF679SPF.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF969GKJ bed narrowPeak optimal idr thresholded peaks ENCSR071YVR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KMT2B-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF199FRO, ENCFF308KAE, ENCFF425QMN 393609 ENCODE Processing Pipeline 07957e2fa3917e92ccaff4d4305055f4 https://www.encodeproject.org/files/ENCFF969GKJ/@@download/ENCFF969GKJ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF037KBA bed narrowPeak optimal idr thresholded peaks ENCSR993LMB ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-TGIF2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF414XQK, ENCFF743RLT, ENCFF974HXD 387181 ENCODE Processing Pipeline 0384e246befd811ed830cf323336589c https://www.encodeproject.org/files/ENCFF037KBA/@@download/ENCFF037KBA.bed.gz hg19 released control low read depth, missing genetic modification characterization characterization(s) pending review ENCFF417TXD bed narrowPeak optimal idr thresholded peaks ENCSR359NFW ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-USF2-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF058DFD, ENCFF138XJT, ENCFF165PIM 267307 ENCODE Processing Pipeline b55f438e6fa9a3b6ae13846dda2ca4b7 https://www.encodeproject.org/files/ENCFF417TXD/@@download/ENCFF417TXD.bed.gz hg19 released control low read depth, low read depth, missing genetic modification characterization ENCFF313TUJ bed narrowPeak optimal idr thresholded peaks ENCSR423RTK ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens GATA3-human DNA False 2016-10-26 ENCODE 1, 2 ENCFF001TDO, ENCFF161DQL, ENCFF863GRL, ENCFF874LLH 1016007 ENCODE Processing Pipeline 295d315f78e8a854456cd97621e2911d https://www.encodeproject.org/files/ENCFF313TUJ/@@download/ENCFF313TUJ.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF246HIU bed narrowPeak optimal idr thresholded peaks ENCSR567JEU ChIP-seq EFO:0002067 K562 cell line Homo sapiens YBX3-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF214PFV, ENCFF277IZH, ENCFF898TYH 51934 ENCODE Processing Pipeline 93b69ccf7b369f691b390eff17a17422 https://www.encodeproject.org/files/ENCFF246HIU/@@download/ENCFF246HIU.bed.gz hg19 released borderline replicate concordance ENCFF615ZNL bed narrowPeak optimal idr thresholded peaks ENCSR387JKT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KDM3A-human DNA False 2018-02-19 ENCODE 1, 2 ENCFF001TDO, ENCFF195MZT, ENCFF513UXW, ENCFF572AIP 327557 ENCODE Processing Pipeline 7c9167548b299e6255d6eedabd649457 https://www.encodeproject.org/files/ENCFF615ZNL/@@download/ENCFF615ZNL.bed.gz hg19 released low read depth, missing genetic modification characterization biological replicates with identical biosample, characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF558QMJ bed narrowPeak optimal idr thresholded peaks ENCSR338SEM ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF248-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF089TLZ, ENCFF321XZG, ENCFF999NWH 47041 ENCODE Processing Pipeline f417a8ca2419c1b64966cf99c0c7f9ae https://www.encodeproject.org/files/ENCFF558QMJ/@@download/ENCFF558QMJ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF120WOF bed narrowPeak optimal idr thresholded peaks ENCSR845BCL ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF639-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF433SFB, ENCFF543QKR, ENCFF816KBT 407319 ENCODE Processing Pipeline ad9c782b246e9bfbb2a00cdbb89a7885 https://www.encodeproject.org/files/ENCFF120WOF/@@download/ENCFF120WOF.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF398EQF bed narrowPeak optimal idr thresholded peaks ENCSR479QAJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens U2AF2-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF483OPS, ENCFF625DLL, ENCFF822WFQ 2627 ENCODE Processing Pipeline 19e5d6b9e2057d0d4abbb65736d1ed41 https://www.encodeproject.org/files/ENCFF398EQF/@@download/ENCFF398EQF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF173NRW bed narrowPeak optimal idr thresholded peaks ENCSR729HVR ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF644-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF587MUY, ENCFF768USG, ENCFF887PEG 196576 ENCODE Processing Pipeline 88b2198aa6b7cfb45030cc7203fa53c3 https://www.encodeproject.org/files/ENCFF173NRW/@@download/ENCFF173NRW.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF428NSH bed narrowPeak optimal idr thresholded peaks ENCSR909GJR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-MXD3-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF545KPN, ENCFF590MES, ENCFF978QAA 303101 ENCODE Processing Pipeline 02b233f3de90b5ec0e421cb78c17788f https://www.encodeproject.org/files/ENCFF428NSH/@@download/ENCFF428NSH.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF801SSE bed narrowPeak optimal idr thresholded peaks ENCSR260UJI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-MBD1-human DNA False 2016-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF020KDS, ENCFF404HWH, ENCFF656YTE 277247 ENCODE Processing Pipeline 92c927c79f7dc604fbc837c438ff2454 https://www.encodeproject.org/files/ENCFF801SSE/@@download/ENCFF801SSE.bed.gz hg19 released control low read depth, missing genetic modification characterization characterization(s) pending review ENCFF922GXT bed narrowPeak optimal idr thresholded peaks ENCSR986XYK ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens PKNOX1-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF117BUH, ENCFF648CSH, ENCFF687IUI 555528 ENCODE Processing Pipeline dcc62a783ecd9b7707f05d42b9c52d1a https://www.encodeproject.org/files/ENCFF922GXT/@@download/ENCFF922GXT.bed.gz hg19 released ENCFF100ERQ bed narrowPeak optimal idr thresholded peaks ENCSR976TBC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IRF5-human DNA False 2017-02-21 ENCODE 1, 2 ENCFF001TDO, ENCFF341MQJ, ENCFF863BUI, ENCFF877SBO 50640 ENCODE Processing Pipeline bfa6493ee2202e459c7ae5dd5a054be9 https://www.encodeproject.org/files/ENCFF100ERQ/@@download/ENCFF100ERQ.bed.gz hg19 released borderline replicate concordance ENCFF034PQD bed narrowPeak optimal idr thresholded peaks ENCSR987PBI ChIP-seq EFO:0002067 K562 cell line Homo sapiens DNMT1-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF904JFG, ENCFF940ADN, ENCFF958LLL 70153 ENCODE Processing Pipeline 79eeb002c4537a9f9bcd3ee531b71688 https://www.encodeproject.org/files/ENCFF034PQD/@@download/ENCFF034PQD.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption ENCFF225MPC bed narrowPeak optimal idr thresholded peaks ENCSR822CCM ChIP-seq EFO:0002067 K562 cell line Homo sapiens ARID1B-human DNA False 2016-11-30 ENCODE 1, 2 ENCFF001TDO, ENCFF118ZSL, ENCFF231SVC, ENCFF549JYE 928168 ENCODE Processing Pipeline cfb2dc624b924c1459c00c31b9d67fff https://www.encodeproject.org/files/ENCFF225MPC/@@download/ENCFF225MPC.bed.gz hg19 released mild to moderate bottlenecking, inconsistent platforms, antibody characterized with exemption ENCFF063WXY bed narrowPeak optimal idr thresholded peaks ENCSR793HVL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens E2F8-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF437MOX, ENCFF482LKM, ENCFF706SMS 134101 ENCODE Processing Pipeline 4c972067fd18a0101bf8d3c87a5f66f9 https://www.encodeproject.org/files/ENCFF063WXY/@@download/ENCFF063WXY.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF602SZJ bed narrowPeak optimal idr thresholded peaks ENCSR765MKZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-DRAP1-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF507QHH, ENCFF684QNN, ENCFF967KQK 424464 ENCODE Processing Pipeline 9d7ed0d84a7c2b1c06dbe54bfa83d64b https://www.encodeproject.org/files/ENCFF602SZJ/@@download/ENCFF602SZJ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF176NOI bed narrowPeak optimal idr thresholded peaks ENCSR648INT ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ILK-human DNA False 2016-02-16 ENCODE 1, 2 ENCFF001TDO, ENCFF207HZD, ENCFF237JZC, ENCFF847LIB 36606 ENCODE Processing Pipeline 607bb4cf8872522d66cec5314f6ad991 https://www.encodeproject.org/files/ENCFF176NOI/@@download/ENCFF176NOI.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization ENCFF562JDH bed narrowPeak optimal idr thresholded peaks ENCSR075HTM ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC2-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF074FFL, ENCFF810MGC, ENCFF888AZU 563260 ENCODE Processing Pipeline cc91f30f2f516fcd7c689ded645811d5 https://www.encodeproject.org/files/ENCFF562JDH/@@download/ENCFF562JDH.bed.gz hg19 released mild to moderate bottlenecking ENCFF129AXO bed narrowPeak optimal idr thresholded peaks ENCSR864KNH ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens YBX1-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF342POD, ENCFF588PWO, ENCFF820VNX 65925 ENCODE Processing Pipeline bb0020b88970e0f9422e3ea7aa6589dc https://www.encodeproject.org/files/ENCFF129AXO/@@download/ENCFF129AXO.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption ENCFF125NZH bed narrowPeak optimal idr thresholded peaks ENCSR925QAW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-HMG20B-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF568HFI, ENCFF782XJB, ENCFF920XKN 216562 ENCODE Processing Pipeline eb77510343117a3f2bd682fcfae0e54d https://www.encodeproject.org/files/ENCFF125NZH/@@download/ENCFF125NZH.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF804MOQ bed narrowPeak optimal idr thresholded peaks ENCSR462KYU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-GABPB1-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF072FFV, ENCFF375BJW, ENCFF625FHX 724401 ENCODE Processing Pipeline 984433876181a9d2f67ba18a34ab4cbb https://www.encodeproject.org/files/ENCFF804MOQ/@@download/ENCFF804MOQ.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization, moderate library complexity characterization(s) pending review missing control alignments ENCFF136JTZ bed narrowPeak optimal idr thresholded peaks ENCSR560SEP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-RXRB-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF021GNS, ENCFF887FOA, ENCFF940DWZ 696373 ENCODE Processing Pipeline 36eda2d11365ed6799dfc348a90c33d6 https://www.encodeproject.org/files/ENCFF136JTZ/@@download/ENCFF136JTZ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF051JAE bed narrowPeak optimal idr thresholded peaks ENCSR096KWU ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF207-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF454VVC, ENCFF517DCO, ENCFF669TVR 82712 ENCODE Processing Pipeline 8a2fc35aff0d987b23d18f62f4c51018 https://www.encodeproject.org/files/ENCFF051JAE/@@download/ENCFF051JAE.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption ENCFF836VRV bed narrowPeak optimal idr thresholded peaks ENCSR641BSL ChIP-seq EFO:0002067 K562 cell line Homo sapiens AGO1-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF191KLS, ENCFF790CEE, ENCFF980ENB 213412 ENCODE Processing Pipeline ed6161b402cc3a65c4fcd72b0bcd501a https://www.encodeproject.org/files/ENCFF836VRV/@@download/ENCFF836VRV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing control alignments ENCFF070GNA bed narrowPeak optimal idr thresholded peaks ENCSR108TYQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-GATAD1-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF243QDS, ENCFF582ZDR, ENCFF663WHF 440040 ENCODE Processing Pipeline 2388abbaa0be740ac7c78b9956bb48c9 https://www.encodeproject.org/files/ENCFF070GNA/@@download/ENCFF070GNA.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF935DRA bed narrowPeak optimal idr thresholded peaks ENCSR938ETG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KLF9-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF003YYP, ENCFF405GYP, ENCFF695EWL 138170 ENCODE Processing Pipeline 940531fe2dfac10cf8a454410b585cc2 https://www.encodeproject.org/files/ENCFF935DRA/@@download/ENCFF935DRA.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF768TJI bed narrowPeak optimal idr thresholded peaks ENCSR296MXW ChIP-seq EFO:0002067 K562 cell line Homo sapiens HNRNPUL1-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF036VGX, ENCFF648RFW, ENCFF788AWO 22390 ENCODE Processing Pipeline 00fee95f4f1764d51955ea63e1ac41fe https://www.encodeproject.org/files/ENCFF768TJI/@@download/ENCFF768TJI.bed.gz hg19 released low read length, low read depth ENCFF292KYR bed narrowPeak optimal idr thresholded peaks ENCSR639IIZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-CEBPG-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF455SWX, ENCFF699AFQ, ENCFF880JAA 676701 ENCODE Processing Pipeline 819fa3d0d5f6d46911a4a26829c03166 https://www.encodeproject.org/files/ENCFF292KYR/@@download/ENCFF292KYR.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF178MOP bed narrowPeak optimal idr thresholded peaks ENCSR000FCD ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMAD5-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF131YKB, ENCFF235FTG, ENCFF875TQG 398842 ENCODE Processing Pipeline 8793c337b4cbb250f1ea3226f4282427 https://www.encodeproject.org/files/ENCFF178MOP/@@download/ENCFF178MOP.bed.gz hg19 released antibody characterized with exemption ENCFF235RIU bed narrowPeak optimal idr thresholded peaks ENCSR876UYH ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZHX2-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF128RLF, ENCFF386GSB, ENCFF487NKY 141623 ENCODE Processing Pipeline dc7415cabbd37772afab2cd1348c825c https://www.encodeproject.org/files/ENCFF235RIU/@@download/ENCFF235RIU.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF002CXY bed narrowPeak optimal idr thresholded peaks ENCSR000EWI ChIP-seq EFO:0002067 K562 cell line Homo sapiens SETDB1-human DNA see document see document False 2011-10-29 ENCODE 89035 ENCODE Consortium Analysis Working Group 75566ac70f8c0b67ab237afdd882c571 https://www.encodeproject.org/files/ENCFF002CXY/@@download/ENCFF002CXY.bed.gz hg19 archived missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF294EHN bed narrowPeak optimal idr thresholded peaks ENCSR000EWI ChIP-seq EFO:0002067 K562 cell line Homo sapiens SETDB1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF269JVH, ENCFF445HEP, ENCFF463JJS 74645 ENCODE Processing Pipeline f88de9d2471f83c6198379e4cbf8920a https://www.encodeproject.org/files/ENCFF294EHN/@@download/ENCFF294EHN.bed.gz hg19 released biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF973LDQ bed narrowPeak optimal idr thresholded peaks ENCSR099NCH ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF24-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF131ZOO, ENCFF716AIG, ENCFF877PNB 405803 ENCODE Processing Pipeline 5aced2d7e389eb5908524ecfd6ae9e02 https://www.encodeproject.org/files/ENCFF973LDQ/@@download/ENCFF973LDQ.bed.gz hg19 released low read depth ENCFF007HXS bed narrowPeak optimal idr thresholded peaks ENCSR662EOU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-NR2F1-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF036XYH, ENCFF399NVO, ENCFF869IAV 230704 ENCODE Processing Pipeline fbdcc436a522c0dee1037d893eced7d3 https://www.encodeproject.org/files/ENCFF007HXS/@@download/ENCFF007HXS.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF457PCA bed narrowPeak optimal idr thresholded peaks ENCSR656MXA ChIP-seq NTR:0000711 neural progenitor cell in vitro differentiated cells Homo sapiens EZH2phosphoT487-human DNA False 2017-02-03 ENCODE 1, 2 ENCFF001TDO, ENCFF275QAK, ENCFF624UCY, ENCFF915JWV 398387 ENCODE Processing Pipeline f73657ee4c68fe21fffa416f781b37f1 https://www.encodeproject.org/files/ENCFF457PCA/@@download/ENCFF457PCA.bed.gz hg19 released antibody characterized with exemption NTR biosample ENCFF567MGV bed narrowPeak optimal idr thresholded peaks ENCSR465XQW ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF217-human DNA False 2017-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF260SLH, ENCFF931OYK, ENCFF959GOJ 582289 ENCODE Processing Pipeline cc41dcfc4a3489a23dc37698413157be https://www.encodeproject.org/files/ENCFF567MGV/@@download/ENCFF567MGV.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample ENCFF961BQJ bed narrowPeak optimal idr thresholded peaks ENCSR503VTG ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF24-human DNA False 2017-06-26 ENCODE 1, 2 ENCFF001TDO, ENCFF020XZH, ENCFF239APD, ENCFF372IMH 262129 ENCODE Processing Pipeline 4b9cc48324b14cbed91146b560fc8b98 https://www.encodeproject.org/files/ENCFF961BQJ/@@download/ENCFF961BQJ.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption ENCFF481WGW bed narrowPeak optimal idr thresholded peaks ENCSR336DXE ChIP-seq EFO:0002067 K562 cell line Homo sapiens SKIL-human DNA False 2017-06-29 ENCODE 2, 3 ENCFF001TDO, ENCFF264IPL, ENCFF476KBA, ENCFF501IBL 449348 ENCODE Processing Pipeline 9d5b80adbb13a11fc2daf31c2c04992c https://www.encodeproject.org/files/ENCFF481WGW/@@download/ENCFF481WGW.bed.gz hg19 released mild to moderate bottlenecking ENCFF680EQI bed narrowPeak optimal idr thresholded peaks ENCSR497JLX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-TEAD1-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF135ZRF, ENCFF293CHO, ENCFF855GZK 584258 ENCODE Processing Pipeline 9d368ef9b978b7bef392898995c638bd https://www.encodeproject.org/files/ENCFF680EQI/@@download/ENCFF680EQI.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CPU bed narrowPeak optimal idr thresholded peaks ENCSR000EAA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens WRNIP1-human DNA see document see document False 2011-10-29 ENCODE 358444 ENCODE Consortium Analysis Working Group dceffa9354c6b6713497fa7e0050fd09 https://www.encodeproject.org/files/ENCFF002CPU/@@download/ENCFF002CPU.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF277VDY bed narrowPeak optimal idr thresholded peaks ENCSR000EAA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens WRNIP1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF317FDH, ENCFF686FNX, ENCFF792ZIP 154015 ENCODE Processing Pipeline 5e7d9db0cbef87de4528e14c15dfb940 https://www.encodeproject.org/files/ENCFF277VDY/@@download/ENCFF277VDY.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF529VDF bed narrowPeak optimal idr thresholded peaks ENCSR455DOO ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-RCOR2-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF114REO, ENCFF331PEV, ENCFF659PMQ 375868 ENCODE Processing Pipeline 57a502e8f6aa3e33867111cec967ebdf https://www.encodeproject.org/files/ENCFF529VDF/@@download/ENCFF529VDF.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF239IZV bed narrowPeak optimal idr thresholded peaks ENCSR604UJV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-IRF2-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF322KIX, ENCFF652QAE, ENCFF671KFL 531701 ENCODE Processing Pipeline 81031e4ee612c83893a9c028af52bcf2 https://www.encodeproject.org/files/ENCFF239IZV/@@download/ENCFF239IZV.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF002CUL bed narrowPeak optimal idr thresholded peaks ENCSR000EDU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MXI1-human DNA see document see document False 2012-08-20 ENCODE 521816 ENCODE Consortium Analysis Working Group abb524e774342f5ff70c2f52ffe5ca43 https://www.encodeproject.org/files/ENCFF002CUL/@@download/ENCFF002CUL.bed.gz hg19 released low read length, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF556PIY bed narrowPeak optimal idr thresholded peaks ENCSR000DYS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens JUND-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF033WHB, ENCFF435ICE, ENCFF811UJD 138991 ENCODE Processing Pipeline c91d4953e458d7a3d972d8ce9494ff67 https://www.encodeproject.org/files/ENCFF556PIY/@@download/ENCFF556PIY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CNJ bed narrowPeak optimal idr thresholded peaks ENCSR000BJJ ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 358708 ENCODE Consortium Analysis Working Group 1049533d6b97f7574b73c5a0e67a3edf https://www.encodeproject.org/files/ENCFF002CNJ/@@download/ENCFF002CNJ.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from control insufficient read depth, insufficient replicate concordance ENCFF946MYA bed narrowPeak optimal idr thresholded peaks ENCSR000BJJ ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF458KOT, ENCFF639APX, ENCFF644HHB 46236 ENCODE Processing Pipeline e416fd7813f52a1578336e19c89685f0 https://www.encodeproject.org/files/ENCFF946MYA/@@download/ENCFF946MYA.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample control insufficient read depth, insufficient replicate concordance ENCFF002CQN bed narrowPeak optimal idr thresholded peaks ENCSR000EBM ChIP-seq EFO:0005351 GM19193 cell line Homo sapiens tumor necrosis factor 25 ng/mL 6 hour RELA-human DNA see document see document False 2011-10-29 ENCODE 132471 ENCODE Consortium Analysis Working Group d83a56196c352fed47578071ddf43b40 https://www.encodeproject.org/files/ENCFF002CQN/@@download/ENCFF002CQN.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF117ZKS bed narrowPeak optimal idr thresholded peaks ENCSR573OJP ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NCOA3-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF341FYC, ENCFF756MQT, ENCFF897KUN 149092 ENCODE Processing Pipeline 17f89852d9c1f1ff572e217fe5068a26 https://www.encodeproject.org/files/ENCFF117ZKS/@@download/ENCFF117ZKS.bed.gz hg19 released ENCFF455HXN bed narrowPeak optimal idr thresholded peaks ENCSR412YGM ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZSCAN29-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF003TOD, ENCFF306UPG, ENCFF781FBO 142613 ENCODE Processing Pipeline 9e9e89c3678bd6eabbfa0df644c7f166 https://www.encodeproject.org/files/ENCFF455HXN/@@download/ENCFF455HXN.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF002CGQ bed narrowPeak optimal idr thresholded peaks ENCSR000BGT ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BATF-human DNA see document see document False 2011-07-18 ENCODE 633359 ENCODE Consortium Analysis Working Group 68eab32a1070bca1a8bc5e9eb96f6c47 https://www.encodeproject.org/files/ENCFF002CGQ/@@download/ENCFF002CGQ.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF593FBF bed narrowPeak optimal idr thresholded peaks ENCSR000BGT ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BATF-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF078EBJ, ENCFF521MBW, ENCFF887VZZ 573169 ENCODE Processing Pipeline 40e640037d380cec9194af33adafd71e https://www.encodeproject.org/files/ENCFF593FBF/@@download/ENCFF593FBF.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF658MKE bed narrowPeak optimal idr thresholded peaks ENCSR460LGH ChIP-seq EFO:0006365 C4-2B cell line Homo sapiens CTCF-human DNA False 2017-07-21 ENCODE 1, 2 ENCFF001TDO, ENCFF328CFX, ENCFF465DTB, ENCFF508LBP 1695710 ENCODE Processing Pipeline 262873360f58bf6d1bee505e706eb21c https://www.encodeproject.org/files/ENCFF658MKE/@@download/ENCFF658MKE.bed.gz hg19 released mild to moderate bottlenecking ENCFF002CWW bed narrowPeak optimal idr thresholded peaks ENCSR000EGL ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour IRF1-human DNA see document see document False 2012-05-14 ENCODE 217639 ENCODE Consortium Analysis Working Group 7abe5f941557c480b288e4e5411459e0 https://www.encodeproject.org/files/ENCFF002CWW/@@download/ENCFF002CWW.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, borderline replicate concordance biological replicates with identical biosample, missing derived_from ENCFF909LKK bed narrowPeak optimal idr thresholded peaks ENCSR000EGL ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour IRF1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF025ZWJ, ENCFF517QNU, ENCFF920BWA 231075 ENCODE Processing Pipeline c977d55edfbe570ff2123255d9b82488 https://www.encodeproject.org/files/ENCFF909LKK/@@download/ENCFF909LKK.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, borderline replicate concordance biological replicates with identical biosample ENCFF002CNH bed narrowPeak optimal idr thresholded peaks ENCSR000BGB ChIP-seq EFO:0002860 SK-N-MC cell line Homo sapiens FOXP2-human DNA see document see document False 2011-07-18 ENCODE 299329 ENCODE Consortium Analysis Working Group a744075d752f05f90fc61e946d27754c https://www.encodeproject.org/files/ENCFF002CNH/@@download/ENCFF002CNH.bed.gz hg19 archived mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth control extremely low read depth, extremely low read length ENCFF398FBV bed narrowPeak optimal idr thresholded peaks ENCSR000BGB ChIP-seq EFO:0002860 SK-N-MC cell line Homo sapiens FOXP2-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF510WZL, ENCFF718CML, ENCFF954MNX 185148 ENCODE Processing Pipeline efd800edbc1a0fba7b1c1a1ec8fb415d https://www.encodeproject.org/files/ENCFF398FBV/@@download/ENCFF398FBV.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read depth control extremely low read depth, extremely low read length ENCFF002CQT bed narrowPeak optimal idr thresholded peaks ENCSR000EBT ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CHD2-human DNA see document see document False 2012-05-14 ENCODE 174733 ENCODE Consortium Analysis Working Group 690e5693f30182418f145a0b807b6ddc https://www.encodeproject.org/files/ENCFF002CQT/@@download/ENCFF002CQT.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF873ITO bed narrowPeak optimal idr thresholded peaks ENCSR000EBT ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CHD2-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF357PEJ, ENCFF410KKV, ENCFF766QCW 168315 ENCODE Processing Pipeline 3788a42ecff9429d70770a237a3a4eab https://www.encodeproject.org/files/ENCFF873ITO/@@download/ENCFF873ITO.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF449ITJ bed narrowPeak optimal idr thresholded peaks ENCSR170DNV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens PHB2-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF059FYG, ENCFF567TXV, ENCFF843HVE 29395 ENCODE Processing Pipeline aa4214966ef0c06f1db3c39a2f54d1cf https://www.encodeproject.org/files/ENCFF449ITJ/@@download/ENCFF449ITJ.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF055NJR bed narrowPeak optimal idr thresholded peaks ENCSR278SQL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NBN-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF174HNI, ENCFF211SVA, ENCFF635TWM 704612 ENCODE Processing Pipeline 983d50b2025e7cdf2bf584b28e2275d6 https://www.encodeproject.org/files/ENCFF055NJR/@@download/ENCFF055NJR.bed.gz hg19 released ENCFF922QEI bed narrowPeak optimal idr thresholded peaks ENCSR555DCF ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF512B-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF054UNK, ENCFF762YNF, ENCFF990NTY 75946 ENCODE Processing Pipeline eb6200cfe45cf80fa8c2b3215e541fde https://www.encodeproject.org/files/ENCFF922QEI/@@download/ENCFF922QEI.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF057VRL bed narrowPeak optimal idr thresholded peaks ENCSR751PNN ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF112-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF078IAH, ENCFF086UBE, ENCFF262JCU 40516 ENCODE Processing Pipeline e8ab7cb8c2a09f7463fe6e4c74d02e30 https://www.encodeproject.org/files/ENCFF057VRL/@@download/ENCFF057VRL.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF643OWO bed narrowPeak optimal idr thresholded peaks ENCSR859FDL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF687-human DNA False 2017-06-26 ENCODE 1, 2 ENCFF001TDO, ENCFF052WWT, ENCFF348CSG, ENCFF665KNY 594294 ENCODE Processing Pipeline e97fb90edf8b142381499be4561ffb6e https://www.encodeproject.org/files/ENCFF643OWO/@@download/ENCFF643OWO.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF545RHH bed narrowPeak optimal idr thresholded peaks ENCSR532EMP ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF740-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF415MTB, ENCFF606TEA, ENCFF996DAB 114029 ENCODE Processing Pipeline 5ba0b64c3abc78bf61a940ba47b5cb4f https://www.encodeproject.org/files/ENCFF545RHH/@@download/ENCFF545RHH.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization ENCFF132QLW bed narrowPeak optimal idr thresholded peaks ENCSR145BHD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NFRKB-human DNA False 2017-06-29 ENCODE 3, 4 ENCFF001TDO, ENCFF205IWA, ENCFF281WBT, ENCFF724KFJ 47424 ENCODE Processing Pipeline 5a36af6c01b964b6983e7d773ad1b220 https://www.encodeproject.org/files/ENCFF132QLW/@@download/ENCFF132QLW.bed.gz hg19 released ENCFF039GWV bed narrowPeak optimal idr thresholded peaks ENCSR372JXR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF511-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF160RBP, ENCFF863YSM, ENCFF970JZW 301938 ENCODE Processing Pipeline 49619a3d351683415190c2ba07e05d2a https://www.encodeproject.org/files/ENCFF039GWV/@@download/ENCFF039GWV.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CFY bed narrowPeak optimal idr thresholded peaks ENCSR000BRM ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour SIN3A-human DNA see document see document False 2012-02-29 ENCODE 150969 ENCODE Consortium Analysis Working Group 387239066cdb309b4f457cffb9b69b14 https://www.encodeproject.org/files/ENCFF002CFY/@@download/ENCFF002CFY.bed.gz hg19 archived low read length biological replicates with identical biosample, missing derived_from ENCFF522RIA bed narrowPeak optimal idr thresholded peaks ENCSR000BRM ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour SIN3A-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF280FDD, ENCFF362KLR, ENCFF968NOA 208546 ENCODE Processing Pipeline 21e6371ef6a2a2ac1fdecc017bbcb743 https://www.encodeproject.org/files/ENCFF522RIA/@@download/ENCFF522RIA.bed.gz hg19 released low read length biological replicates with identical biosample ENCFF073XKN bed narrowPeak optimal idr thresholded peaks ENCSR665KYH ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF521-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF089PWK, ENCFF279UHE, ENCFF823WZI 29916 ENCODE Processing Pipeline f751dada03d75e9a2879c2c244d551f5 https://www.encodeproject.org/files/ENCFF073XKN/@@download/ENCFF073XKN.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization missing control alignments ENCFF464MAI bed narrowPeak optimal idr thresholded peaks ENCSR483VJQ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF662-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF067MFF, ENCFF467VSE, ENCFF760LFX 35224 ENCODE Processing Pipeline e67346113547e01be31a7f6901c4187a https://www.encodeproject.org/files/ENCFF464MAI/@@download/ENCFF464MAI.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF883YNO bed narrowPeak optimal idr thresholded peaks ENCSR125DAD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-MLX-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF048IUI, ENCFF409MWH, ENCFF908VCH 265326 ENCODE Processing Pipeline 45d570958ee37878e149aa6dfcd84504 https://www.encodeproject.org/files/ENCFF883YNO/@@download/ENCFF883YNO.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CEL bed narrowPeak optimal idr thresholded peaks ENCSR000AKO ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1231983 ENCODE Consortium Analysis Working Group 7ddb20610be6d90b16f37e167c79f019 https://www.encodeproject.org/files/ENCFF002CEL/@@download/ENCFF002CEL.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, mixed read lengths missing derived_from insufficient read depth ENCFF917CXD bed narrowPeak optimal idr thresholded peaks ENCSR849WCQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ASH2L-human DNA False 2017-01-08 ENCODE 1, 2 ENCFF001TDO, ENCFF217GDM, ENCFF684QPN, ENCFF801ULT 136236 ENCODE Processing Pipeline 80e778a2362eb91eb3f36ec00813c9d6 https://www.encodeproject.org/files/ENCFF917CXD/@@download/ENCFF917CXD.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth ENCFF949QZO bed narrowPeak optimal idr thresholded peaks ENCSR924TVL ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens RFX5-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF366JFG, ENCFF376EFD, ENCFF458VAF 216700 ENCODE Processing Pipeline d9edd7a6a711bbc6213e1cd02d1230f2 https://www.encodeproject.org/files/ENCFF949QZO/@@download/ENCFF949QZO.bed.gz hg19 released antibody characterized with exemption ENCFF415WEH bed narrowPeak optimal idr thresholded peaks ENCSR659LJJ ChIP-seq EFO:0001086 A549 cell line Homo sapiens HDAC2-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF047HRL, ENCFF480BUU, ENCFF869FPC 69758 ENCODE Processing Pipeline e570ad6a282afc9b551d1bc3c785260e https://www.encodeproject.org/files/ENCFF415WEH/@@download/ENCFF415WEH.bed.gz hg19 released missing control alignments ENCFF996CUX bed narrowPeak optimal idr thresholded peaks ENCSR711VWL ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC1-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF080VTW, ENCFF084IPF, ENCFF149SPA 680484 ENCODE Processing Pipeline 9bb7168ee1677082803a055cbec21cc4 https://www.encodeproject.org/files/ENCFF996CUX/@@download/ENCFF996CUX.bed.gz hg19 released ENCFF462ZZD bed narrowPeak optimal idr thresholded peaks ENCSR229DYF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB26-human DNA formaldehyde False 2016-12-13 ENCODE 1, 2 ENCFF001TDO, ENCFF003KQY, ENCFF005NYL, ENCFF013SKW 645376 ENCODE Processing Pipeline fe7772dff49340b12a501e61123da918 https://www.encodeproject.org/files/ENCFF462ZZD/@@download/ENCFF462ZZD.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization missing control alignments ENCFF849UJR bed narrowPeak optimal idr thresholded peaks ENCSR638QYO ChIP-seq EFO:0001086 A549 cell line Homo sapiens SREBF2-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF373ECD, ENCFF757QKH, ENCFF945PVC 15537 ENCODE Processing Pipeline 18ce94b154e37d7126b3dabeec5e01e6 https://www.encodeproject.org/files/ENCFF849UJR/@@download/ENCFF849UJR.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity ENCFF860MVU bed narrowPeak optimal idr thresholded peaks ENCSR638QYO ChIP-seq EFO:0001086 A549 cell line Homo sapiens SREBF2-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF679OFK, ENCFF681JGU, ENCFF901URI 16737 ENCODE Processing Pipeline c454af9c000fbbe591ead3ae39cb1f8d https://www.encodeproject.org/files/ENCFF860MVU/@@download/ENCFF860MVU.bed.gz hg19 archived mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity ENCFF671BJT bed narrowPeak optimal idr thresholded peaks ENCSR465VLK ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens FOXK2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF462LEE, ENCFF500PCI, ENCFF610BOW 38217 ENCODE Processing Pipeline ad302231cc0be974b9752e50205047a1 https://www.encodeproject.org/files/ENCFF671BJT/@@download/ENCFF671BJT.bed.gz hg19 released borderline replicate concordance ENCFF883WYX bed narrowPeak optimal idr thresholded peaks ENCSR177DNR ChIP-seq EFO:0002067 K562 cell line Homo sapiens FIP1L1-human DNA SDS formaldehyde False 2018-01-16 ENCODE 1, 2 ENCFF001TDO, ENCFF255AOS, ENCFF272ULK, ENCFF341OFU 183001 ENCODE Processing Pipeline eb13fa4a3357a71054dc9cd775fd98d3 https://www.encodeproject.org/files/ENCFF883WYX/@@download/ENCFF883WYX.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF573ALP bed narrowPeak optimal idr thresholded peaks ENCSR334KIQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SP1-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF894JDZ, ENCFF894RIX, ENCFF904OAW 35549 ENCODE Processing Pipeline e3b333943669cf298b44651490ef0df4 https://www.encodeproject.org/files/ENCFF573ALP/@@download/ENCFF573ALP.bed.gz hg19 released ENCFF164EJE bed narrowPeak optimal idr thresholded peaks ENCSR560BUE ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2017-10-19 ENCODE 1, 2 ENCFF001TDO, ENCFF086WBN, ENCFF724MMC, ENCFF849TKV 948209 ENCODE Processing Pipeline 1dfc11608ac341e8e3002b060457b7b6 https://www.encodeproject.org/files/ENCFF164EJE/@@download/ENCFF164EJE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF146HGZ bed narrowPeak optimal idr thresholded peaks ENCSR435OQD ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZFX-human DNA False 2017-07-21 ENCODE 1, 2 ENCFF001TDO, ENCFF222IPA, ENCFF340IJR, ENCFF795HRT 453992 ENCODE Processing Pipeline 5b42ec5877c4a8ed087f9056524528d1 https://www.encodeproject.org/files/ENCFF146HGZ/@@download/ENCFF146HGZ.bed.gz hg19 released borderline replicate concordance NTR biosample ENCFF231RXA bed narrowPeak optimal idr thresholded peaks ENCSR550SCU ChIP-seq EFO:0001086 A549 cell line Homo sapiens CHD4-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF499JUB, ENCFF703IAU, ENCFF962EUZ 59986 ENCODE Processing Pipeline 16a66ff2bf339cd6013aa949756c8d1e https://www.encodeproject.org/files/ENCFF231RXA/@@download/ENCFF231RXA.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption ENCFF681NJT bed narrowPeak optimal idr thresholded peaks ENCSR081WLS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RAD51-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF241WWS, ENCFF377TYD, ENCFF633UOS 141962 ENCODE Processing Pipeline 02243fd2b0803e92a3cdaaa90f1f9c18 https://www.encodeproject.org/files/ENCFF681NJT/@@download/ENCFF681NJT.bed.gz hg19 released borderline replicate concordance ENCFF976CLA bed narrowPeak optimal idr thresholded peaks ENCSR505NMN ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens eGFP-E2F4-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF326GRX, ENCFF358OVY, ENCFF571JFL 19150 ENCODE Processing Pipeline 44b88f2140b1d4a9e63274fa6244f873 https://www.encodeproject.org/files/ENCFF976CLA/@@download/ENCFF976CLA.bed.gz hg19 released mild to moderate bottlenecking, low read depth, missing genetic modification characterization ENCFF360BTO bed narrowPeak optimal idr thresholded peaks ENCSR426URK ChIP-seq EFO:0002067 K562 cell line Homo sapiens AFF1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF306ZWZ, ENCFF413ETF, ENCFF653QLK 370611 ENCODE Processing Pipeline d924365e4efb8282031777e9dde5f954 https://www.encodeproject.org/files/ENCFF360BTO/@@download/ENCFF360BTO.bed.gz hg19 released mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody ENCFF944IVP bed narrowPeak optimal idr thresholded peaks ENCSR011CIR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF614-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF198RAS, ENCFF537CVM, ENCFF760PSK 426694 ENCODE Processing Pipeline 8f0cfb1c8ef37a3bb213a71519556f28 https://www.encodeproject.org/files/ENCFF944IVP/@@download/ENCFF944IVP.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF949EAE bed narrowPeak optimal idr thresholded peaks ENCSR894SXR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TCF12-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF208MYK, ENCFF378WXQ, ENCFF661IHD 5699 ENCODE Processing Pipeline ce4bb6cb1145b13af954783f501088d3 https://www.encodeproject.org/files/ENCFF949EAE/@@download/ENCFF949EAE.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption ENCFF834WGJ bed narrowPeak optimal idr thresholded peaks ENCSR598TIR ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF507-human DNA False 2017-02-13 ENCODE 1, 2 ENCFF001TDO, ENCFF096XNX, ENCFF211EQN, ENCFF396RQL 221226 ENCODE Processing Pipeline 31f39e7e53f6aa68a77cdb6385d89ac6 https://www.encodeproject.org/files/ENCFF834WGJ/@@download/ENCFF834WGJ.bed.gz hg19 released missing genetic modification characterization ENCFF226RAW bed narrowPeak optimal idr thresholded peaks ENCSR670YPQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-DMAP1-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF143HUI, ENCFF292NEY, ENCFF401IHO 500926 ENCODE Processing Pipeline 26d04c290326d16bad54297f63204b21 https://www.encodeproject.org/files/ENCFF226RAW/@@download/ENCFF226RAW.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF452SPE bed narrowPeak optimal idr thresholded peaks ENCSR847LBF ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-FOXJ2-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF521WEX, ENCFF629GGT, ENCFF639WQU 235803 ENCODE Processing Pipeline 7c83d0cc8201d650834cf642030fa17c https://www.encodeproject.org/files/ENCFF452SPE/@@download/ENCFF452SPE.bed.gz hg19 released control low read depth, low read depth, missing genetic modification characterization ENCFF853TZC bed narrowPeak optimal idr thresholded peaks ENCSR580IAO ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF197-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF061VCB, ENCFF820OCS, ENCFF866TCF 161658 ENCODE Processing Pipeline 76dff59260974ea4959eabcd3f275a6a https://www.encodeproject.org/files/ENCFF853TZC/@@download/ENCFF853TZC.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF134NMW bed narrowPeak optimal idr thresholded peaks ENCSR415TXN ChIP-seq EFO:0002067 K562 cell line Homo sapiens NONO-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF028TZK, ENCFF609LOZ, ENCFF882WGE 90103 ENCODE Processing Pipeline e27dcf77f1ba6a47765799b317b359ae https://www.encodeproject.org/files/ENCFF134NMW/@@download/ENCFF134NMW.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF408ILT bed narrowPeak optimal idr thresholded peaks ENCSR666QNP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-TEAD3-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF596FKZ, ENCFF605RYJ, ENCFF640ZKF 732319 ENCODE Processing Pipeline de35f95c45167b6d59b20b7b1c9f8e9e https://www.encodeproject.org/files/ENCFF408ILT/@@download/ENCFF408ILT.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF708BTH bed narrowPeak optimal idr thresholded peaks ENCSR949NVY ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF639-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF530RTW, ENCFF755JDJ, ENCFF765UQI 319090 ENCODE Processing Pipeline c398b933bc4c8d8b03045d41ec90fb85 https://www.encodeproject.org/files/ENCFF708BTH/@@download/ENCFF708BTH.bed.gz hg19 released borderline replicate concordance, low read depth experiment not submitted to GEO partially characterized antibody ENCFF265NSP bed narrowPeak optimal idr thresholded peaks ENCSR979FQP ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens GATAD2B-human DNA False 2017-09-29 ENCODE 1, 2 ENCFF001TDO, ENCFF042JUH, ENCFF056MRN, ENCFF930UBG 199333 ENCODE Processing Pipeline 3504216ffa027cded0fa19b18135462b https://www.encodeproject.org/files/ENCFF265NSP/@@download/ENCFF265NSP.bed.gz hg19 released ENCFF899JBI bed narrowPeak optimal idr thresholded peaks ENCSR835XKS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TRIM22-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF350OGU, ENCFF543JOD, ENCFF568AYW 607627 ENCODE Processing Pipeline 9c5099c43d4fe33f42035269e73fc191 https://www.encodeproject.org/files/ENCFF899JBI/@@download/ENCFF899JBI.bed.gz hg19 released low read depth ENCFF359WMP bed narrowPeak optimal idr thresholded peaks ENCSR934JDG ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CLOCK-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF304PKL, ENCFF646NKR, ENCFF700KCM 261287 ENCODE Processing Pipeline 7a9845a569983a1b9ca6a496e7ca7bca https://www.encodeproject.org/files/ENCFF359WMP/@@download/ENCFF359WMP.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF685KAG bed narrowPeak optimal idr thresholded peaks ENCSR290MUH ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-GABPA-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF026SKI, ENCFF835LBQ, ENCFF845TET 590608 ENCODE Processing Pipeline 2642e3d21c71e17716b79b0496bbf05b https://www.encodeproject.org/files/ENCFF685KAG/@@download/ENCFF685KAG.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF722XRW bed narrowPeak optimal idr thresholded peaks ENCSR268QIQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens SRSF3-human DNA SDS formaldehyde False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF351RVX, ENCFF660YKV, ENCFF855KUE 35897 ENCODE Processing Pipeline 66fd79ad483e886447bda38002301cf8 https://www.encodeproject.org/files/ENCFF722XRW/@@download/ENCFF722XRW.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity experiment not submitted to GEO insufficient read depth ENCFF605KFA bed narrowPeak optimal idr thresholded peaks ENCSR568PGX ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC1-human DNA False 2016-11-22 ENCODE 1, 2 ENCFF001TDO, ENCFF079BZJ, ENCFF536DPF, ENCFF849NGF 74757 ENCODE Processing Pipeline 63f4f243cb229ebb48b19b79389deedf https://www.encodeproject.org/files/ENCFF605KFA/@@download/ENCFF605KFA.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms, moderate library complexity ENCFF276KYQ bed narrowPeak optimal idr thresholded peaks ENCSR534VHI ChIP-seq EFO:0007950 GM23338 induced pluripotent stem cell line Homo sapiens ETS1-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF389SGB, ENCFF784MYN, ENCFF824HYC 188145 ENCODE Processing Pipeline fc36640405c7258cce065ca68d02f2fc https://www.encodeproject.org/files/ENCFF276KYQ/@@download/ENCFF276KYQ.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption missing control alignments ENCFF794MHJ bed narrowPeak optimal idr thresholded peaks ENCSR534VHI ChIP-seq EFO:0007950 GM23338 induced pluripotent stem cell line Homo sapiens ETS1-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF435AEO, ENCFF856AFV, ENCFF879HCW 152698 ENCODE Processing Pipeline 28bd1c40b861835abf7bdeae27518a7e https://www.encodeproject.org/files/ENCFF794MHJ/@@download/ENCFF794MHJ.bed.gz hg19 archived borderline replicate concordance, antibody characterized with exemption missing control alignments ENCFF517KRT bed narrowPeak optimal idr thresholded peaks ENCSR138YYY ChIP-seq EFO:0002067 K562 cell line Homo sapiens GABPB1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF451ZHQ, ENCFF527OVH, ENCFF566QTT 549424 ENCODE Processing Pipeline 1f83d9a4aa4dfe13ce2316b957eee10c https://www.encodeproject.org/files/ENCFF517KRT/@@download/ENCFF517KRT.bed.gz hg19 released mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody ENCFF704ZYN bed narrowPeak optimal idr thresholded peaks ENCSR437GBJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFATC3-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF452APP, ENCFF473OII, ENCFF549TIS 449441 ENCODE Processing Pipeline d57b85ace159f8e7ba3cdff45e9b3338 https://www.encodeproject.org/files/ENCFF704ZYN/@@download/ENCFF704ZYN.bed.gz hg19 released mild to moderate bottlenecking, inconsistent platforms, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking, partially characterized antibody ENCFF002COX bed narrowPeak optimal idr thresholded peaks ENCSR000DZA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MAZ-human DNA see document see document False 2012-05-14 ENCODE 487628 ENCODE Consortium Analysis Working Group 4fbb1074820a315f2c46941fd87d8591 https://www.encodeproject.org/files/ENCFF002COX/@@download/ENCFF002COX.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF066XDW bed narrowPeak optimal idr thresholded peaks ENCSR000DZA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MAZ-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF007UID, ENCFF138BYH, ENCFF440OBY 438480 ENCODE Processing Pipeline 819540d756d42218522ec2e8fd9c0b87 https://www.encodeproject.org/files/ENCFF066XDW/@@download/ENCFF066XDW.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002COO bed narrowPeak optimal idr thresholded peaks ENCSR000DZR ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CHD2-human DNA see document see document False 2011-10-29 ENCODE 390735 ENCODE Consortium Analysis Working Group 3a4c289605de5b058f668f79ac5b6204 https://www.encodeproject.org/files/ENCFF002COO/@@download/ENCFF002COO.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample insufficient replicate concordance ENCFF712GLE bed narrowPeak optimal idr thresholded peaks ENCSR000DZR ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CHD2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF289WNM, ENCFF346VHH, ENCFF779XER 295908 ENCODE Processing Pipeline 0830d755f4ca94b216c9c4277888ad5a https://www.encodeproject.org/files/ENCFF712GLE/@@download/ENCFF712GLE.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample insufficient replicate concordance ENCFF713MCF bed narrowPeak optimal idr thresholded peaks ENCSR601OGE ChIP-seq UBERON:0002107 liver tissue Homo sapiens HNF4A-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF022XIX, ENCFF240XXW, ENCFF839MCU 1254968 ENCODE Processing Pipeline 2054296572380b63d6dedec1cf356f04 https://www.encodeproject.org/files/ENCFF713MCF/@@download/ENCFF713MCF.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample ENCFF838COI bed narrowPeak optimal idr thresholded peaks ENCSR360HRA ChIP-seq EFO:0002067 K562 cell line Homo sapiens KDM1A-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF331TXU, ENCFF490XLD, ENCFF499UMV 629731 ENCODE Processing Pipeline 29b3f9c5729c3aa115f9cfa92da97076 https://www.encodeproject.org/files/ENCFF838COI/@@download/ENCFF838COI.bed.gz hg19 released mild to moderate bottlenecking ENCFF804UDG bed narrowPeak optimal idr thresholded peaks ENCSR837GTK ChIP-seq UBERON:0002107 liver tissue Homo sapiens JUND-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF301CFJ, ENCFF373EUK, ENCFF436DJC 621826 ENCODE Processing Pipeline 4831345a4a86188eac653f2ee5b01725 https://www.encodeproject.org/files/ENCFF804UDG/@@download/ENCFF804UDG.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF002CEA bed narrowPeak optimal idr thresholded peaks ENCSR000ARI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 86666 ENCODE Consortium Analysis Working Group 40f6649223742480c7730318309b7323 https://www.encodeproject.org/files/ENCFF002CEA/@@download/ENCFF002CEA.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from ENCFF493FED bed narrowPeak optimal idr thresholded peaks ENCSR000ARI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF199MPQ, ENCFF670QJS, ENCFF677XOS 108726 ENCODE Processing Pipeline 9910bb382e3170e3889630548487d0bb https://www.encodeproject.org/files/ENCFF493FED/@@download/ENCFF493FED.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF007DKB bed narrowPeak optimal idr thresholded peaks ENCSR126FZN ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-PTRF-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF355KNJ, ENCFF357IPW, ENCFF488ZUO 97313 ENCODE Processing Pipeline e43f9679c5db6d500d389acadd52871e https://www.encodeproject.org/files/ENCFF007DKB/@@download/ENCFF007DKB.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization missing mapped reads lengths ENCFF445UJF bed narrowPeak optimal idr thresholded peaks ENCSR482TWQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RAD51-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF014TGJ, ENCFF270NTV, ENCFF310LKB 329507 ENCODE Processing Pipeline f6fdb19b8e301226eee898e1023fe74c https://www.encodeproject.org/files/ENCFF445UJF/@@download/ENCFF445UJF.bed.gz hg19 released mild to moderate bottlenecking, inconsistent platforms, moderate library complexity ENCFF002CWE bed narrowPeak optimal idr thresholded peaks ENCSR000EZV ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour MYC-human DNA see document see document False 2011-10-29 ENCODE 229866 ENCODE Consortium Analysis Working Group 621f5c78a485d7d2f5774a508d526313 https://www.encodeproject.org/files/ENCFF002CWE/@@download/ENCFF002CWE.bed.gz hg19 archived control low read depth, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF387LTN bed narrowPeak optimal idr thresholded peaks ENCSR000EZV ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour MYC-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF028OCG, ENCFF837BDB, ENCFF951BWR 214182 ENCODE Processing Pipeline 7f880cffb36b0f56b3b62739e6b4b1b4 https://www.encodeproject.org/files/ENCFF387LTN/@@download/ENCFF387LTN.bed.gz hg19 released control low read depth, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CLS bed narrowPeak optimal idr thresholded peaks ENCSR000BPJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTCF-human DNA see document see document False 2012-02-29 ENCODE 892491 ENCODE Consortium Analysis Working Group 749db3fdd18af5e96e12683dc67852b6 https://www.encodeproject.org/files/ENCFF002CLS/@@download/ENCFF002CLS.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF085HTY bed narrowPeak optimal idr thresholded peaks ENCSR000BPJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTCF-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF235AXH, ENCFF443OXB, ENCFF815GMT 795526 ENCODE Processing Pipeline ef53728caa8d0b461eed1f1fd335edf4 https://www.encodeproject.org/files/ENCFF085HTY/@@download/ENCFF085HTY.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF265QRY bed narrowPeak optimal idr thresholded peaks ENCSR000EIA ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens MXI1-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF194TDU, ENCFF371MFR, ENCFF970VRK 704022 ENCODE Processing Pipeline 3d45d307ba38c7aae59c8bf33021fc47 https://www.encodeproject.org/files/ENCFF265QRY/@@download/ENCFF265QRY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CKV bed narrowPeak optimal idr thresholded peaks ENCSR000BLW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens EP300-human DNA see document see document False 2011-07-18 ENCODE 652956 ENCODE Consortium Analysis Working Group 551ba2c2a796f4754ea17a42edf95bd9 https://www.encodeproject.org/files/ENCFF002CKV/@@download/ENCFF002CKV.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF547POU bed narrowPeak optimal idr thresholded peaks ENCSR000BLW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens EP300-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF397JOR, ENCFF906ESV, ENCFF908HDQ 549606 ENCODE Processing Pipeline 413e4eb5d23e404dfb66b7c3d8069a71 https://www.encodeproject.org/files/ENCFF547POU/@@download/ENCFF547POU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF002CZV bed narrowPeak optimal idr thresholded peaks ENCSR000EXP ChIP-seq CL:0000765 erythroblast primary cell Homo sapiens GATA1-human DNA see document see document False 2011-10-29 ENCODE 495881 ENCODE Consortium Analysis Working Group 001be63af869fbaa551e413332d0a0b0 https://www.encodeproject.org/files/ENCFF002CZV/@@download/ENCFF002CZV.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth, severe bottlenecking ENCFF957CWW bed narrowPeak optimal idr thresholded peaks ENCSR000EXP ChIP-seq CL:0000765 erythroblast primary cell Homo sapiens GATA1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF091ANC, ENCFF330USX, ENCFF372YKO 613178 ENCODE Processing Pipeline e9169de25a7d1181ae006801678cc91c https://www.encodeproject.org/files/ENCFF957CWW/@@download/ENCFF957CWW.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read depth, severe bottlenecking ENCFF322DSX bed narrowPeak optimal idr thresholded peaks ENCSR168CEE ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOA6-human DNA False 2017-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF520CHA, ENCFF558GGF, ENCFF647EHE 88312 ENCODE Processing Pipeline 28762e7df97bdc9821817b1cd72eac8c https://www.encodeproject.org/files/ENCFF322DSX/@@download/ENCFF322DSX.bed.gz hg19 released mild to moderate bottlenecking ENCFF334FKO bed narrowPeak optimal idr thresholded peaks ENCSR893QWP ChIP-seq UBERON:0002107 liver tissue Homo sapiens REST-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF363JNV, ENCFF506HHV, ENCFF592OPP 346822 ENCODE Processing Pipeline c1655be4d3dc99d5b6dc81ee253bcce4 https://www.encodeproject.org/files/ENCFF334FKO/@@download/ENCFF334FKO.bed.gz hg19 released mild to moderate bottlenecking, low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF874DDR bed narrowPeak optimal idr thresholded peaks ENCSR000DMY ChIP-seq EFO:0002939 medulloblastoma cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF012GOG, ENCFF525QBA, ENCFF550YRO 699291 ENCODE Processing Pipeline 09f2bc62227b28b0550ce5999dd49d02 https://www.encodeproject.org/files/ENCFF874DDR/@@download/ENCFF874DDR.bed.gz hg19 released control low read depth, mild to moderate bottlenecking, low read depth biological replicates with identical biosample missing control alignments ENCFF002CIQ bed narrowPeak optimal idr thresholded peaks ENCSR000BLT ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 314930 ENCODE Consortium Analysis Working Group 2e6452116f6209adbe07483c03da261b https://www.encodeproject.org/files/ENCFF002CIQ/@@download/ENCFF002CIQ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF667URP bed narrowPeak optimal idr thresholded peaks ENCSR000BLT ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF311HXH, ENCFF434TLG, ENCFF797ZRE 329888 ENCODE Processing Pipeline 691ee9a84e6688bc1a23a04fcd3fb199 https://www.encodeproject.org/files/ENCFF667URP/@@download/ENCFF667URP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF049CRW bed narrowPeak optimal idr thresholded peaks ENCSR957LDM ChIP-seq EFO:0002067 K562 cell line Homo sapiens TRIM24-human DNA False 2016-09-27 ENCODE 1, 2 ENCFF001TDO, ENCFF121KKJ, ENCFF261OOY, ENCFF303OST 364868 ENCODE Processing Pipeline 365d731ad998698c1878c914037ef74d https://www.encodeproject.org/files/ENCFF049CRW/@@download/ENCFF049CRW.bed.gz hg19 released low read depth ENCFF002CYQ bed narrowPeak optimal idr thresholded peaks ENCSR000EWF ChIP-seq EFO:0002067 K562 cell line Homo sapiens YY1-human DNA see document see document False 2011-10-29 ENCODE 104777 ENCODE Consortium Analysis Working Group 940cef4ff84d4b47a11d8fd9e57f53ca https://www.encodeproject.org/files/ENCFF002CYQ/@@download/ENCFF002CYQ.bed.gz hg19 archived borderline replicate concordance missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF557DSM bed narrowPeak optimal idr thresholded peaks ENCSR000EWF ChIP-seq EFO:0002067 K562 cell line Homo sapiens YY1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF211PND, ENCFF228AYO, ENCFF899XEM 93049 ENCODE Processing Pipeline cf8ffec94a9b83f40812443c565a6a17 https://www.encodeproject.org/files/ENCFF557DSM/@@download/ENCFF557DSM.bed.gz hg19 released borderline replicate concordance biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF948YVM bed narrowPeak optimal idr thresholded peaks ENCSR594SMP ChIP-seq EFO:0002067 K562 cell line Homo sapiens PHF20-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF088HLB, ENCFF306BVA, ENCFF449TFM 290718 ENCODE Processing Pipeline 71944dd6288fae450b528c9a98c7ed04 https://www.encodeproject.org/files/ENCFF948YVM/@@download/ENCFF948YVM.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF566FVB bed narrowPeak optimal idr thresholded peaks ENCSR205FOW ChIP-seq UBERON:0002107 liver tissue Homo sapiens ATF3-human DNA False 2016-03-31 ENCODE 1, 2 ENCFF001TDO, ENCFF025EPQ, ENCFF515NYK, ENCFF811WQQ 307540 ENCODE Processing Pipeline 27f4568230f4e95c89aa289b352058cd https://www.encodeproject.org/files/ENCFF566FVB/@@download/ENCFF566FVB.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF963GDB bed narrowPeak optimal idr thresholded peaks ENCSR205FOW ChIP-seq UBERON:0002107 liver tissue Homo sapiens ATF3-human DNA False 2016-03-31 ENCODE 1, 2 ENCFF001TDO, ENCFF128ZQH, ENCFF315FCJ, ENCFF853ZNE 270502 ENCODE Processing Pipeline a64761d8974058ef1c282dfb231db1a5 https://www.encodeproject.org/files/ENCFF963GDB/@@download/ENCFF963GDB.bed.gz hg19 archived antibody characterized with exemption biological replicates with identical biosample ENCFF849GMW bed narrowPeak optimal idr thresholded peaks ENCSR274SLQ ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens CHD2-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF506WYU, ENCFF707NDG, ENCFF729QET 532934 ENCODE Processing Pipeline 57c876e4c63e708f692efb6aef550a8e https://www.encodeproject.org/files/ENCFF849GMW/@@download/ENCFF849GMW.bed.gz hg19 released file validation error, low read length mismatched file status, experiment not submitted to GEO partially characterized antibody ENCFF644WLI bed narrowPeak optimal idr thresholded peaks ENCSR608XTF ChIP-seq EFO:0002067 K562 cell line Homo sapiens RNF2-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF059LBQ, ENCFF134OWN, ENCFF789DUE 740515 ENCODE Processing Pipeline 4a0a8623e3cb7340dd9ced9610ab18e2 https://www.encodeproject.org/files/ENCFF644WLI/@@download/ENCFF644WLI.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms ENCFF971QHN bed narrowPeak optimal idr thresholded peaks ENCSR297GII ChIP-seq UBERON:0002107 liver tissue Homo sapiens HNF4G-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF003GWJ, ENCFF129GGF, ENCFF651MBI 384070 ENCODE Processing Pipeline b2dc6635b5a638f683ecc6f1d4144373 https://www.encodeproject.org/files/ENCFF971QHN/@@download/ENCFF971QHN.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF862NGG bed narrowPeak optimal idr thresholded peaks ENCSR297GII ChIP-seq UBERON:0002107 liver tissue Homo sapiens HNF4G-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF741KXN, ENCFF765FDF, ENCFF955CAT 332417 ENCODE Processing Pipeline d7918ac7abf430b1367f587b576211a2 https://www.encodeproject.org/files/ENCFF862NGG/@@download/ENCFF862NGG.bed.gz hg19 archived antibody characterized with exemption biological replicates with identical biosample ENCFF126PNX bed narrowPeak optimal idr thresholded peaks ENCSR324RCI ChIP-seq UBERON:0002107 liver tissue Homo sapiens FOXA1-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF363RKC, ENCFF971SJB, ENCFF972ILN 336869 ENCODE Processing Pipeline 6d717898050610295a501877bd125954 https://www.encodeproject.org/files/ENCFF126PNX/@@download/ENCFF126PNX.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, antibody characterized with exemption biological replicates with identical biosample ENCFF693PZH bed narrowPeak optimal idr thresholded peaks ENCSR619IUE ChIP-seq CL:0000103 bipolar neuron in vitro differentiated cells Homo sapiens doxycycline hyclate 0.5 μg/mL 4 day CTCF-human DNA False 2016-10-27 ENCODE 1, 2 ENCFF001TDO, ENCFF263PBF, ENCFF682TFX, ENCFF721XMZ 956798 ENCODE Processing Pipeline 204ad61bcdc9e26628e1deafb30a2fed https://www.encodeproject.org/files/ENCFF693PZH/@@download/ENCFF693PZH.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption biological replicates with identical biosample, NTR biosample ENCFF844HBQ bed narrowPeak optimal idr thresholded peaks ENCSR760UVO ChIP-seq EFO:0002067 K562 cell line Homo sapiens KLF16-human DNA False 2016-09-12 ENCODE 1, 2 ENCFF001TDO, ENCFF077SAE, ENCFF373FDW, ENCFF939WYL 312304 ENCODE Processing Pipeline b304df9dcf031ea1956760833ad45da5 https://www.encodeproject.org/files/ENCFF844HBQ/@@download/ENCFF844HBQ.bed.gz hg19 released antibody characterized with exemption ENCFF785HXY bed narrowPeak optimal idr thresholded peaks ENCSR100UQX ChIP-seq EFO:0002067 K562 cell line Homo sapiens TAF9B-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF238CDA, ENCFF656UAV, ENCFF697XWY 287268 ENCODE Processing Pipeline dee290c401ff14a52a21cbe5f1a21352 https://www.encodeproject.org/files/ENCFF785HXY/@@download/ENCFF785HXY.bed.gz hg19 released mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody ENCFF142EVF bed narrowPeak optimal idr thresholded peaks ENCSR212YKD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SKIL-human DNA False 2017-07-24 ENCODE 1, 2 ENCFF001TDO, ENCFF047ZBU, ENCFF513BIR, ENCFF922PHV 520152 ENCODE Processing Pipeline 7d07051af43759929280cae1252a92bb https://www.encodeproject.org/files/ENCFF142EVF/@@download/ENCFF142EVF.bed.gz hg19 released mild to moderate bottlenecking, low read depth, inconsistent platforms experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF580LHX bed narrowPeak optimal idr thresholded peaks ENCSR138RCE ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF132-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF051XDB, ENCFF277OHH, ENCFF551KZV 10983 ENCODE Processing Pipeline 4673d15e6e9d53d4694bae5ef8a83d10 https://www.encodeproject.org/files/ENCFF580LHX/@@download/ENCFF580LHX.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF017YUI bed narrowPeak optimal idr thresholded peaks ENCSR386YIH ChIP-seq UBERON:0002107 liver tissue Homo sapiens SP1-human DNA False 2018-02-08 ENCODE 1, 2 ENCFF001TDO, ENCFF027RDL, ENCFF084INO, ENCFF571PKW 1086792 ENCODE Processing Pipeline 6d927fefe02424dcffe488b1873c853e https://www.encodeproject.org/files/ENCFF017YUI/@@download/ENCFF017YUI.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample, experiment not submitted to GEO ENCFF002CIH bed narrowPeak optimal idr thresholded peaks ENCSR000BIK ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 404939 ENCODE Consortium Analysis Working Group 7b901ec2e549aabcdab6ad4450d419e4 https://www.encodeproject.org/files/ENCFF002CIH/@@download/ENCFF002CIH.bed.gz hg19 archived control low read depth, low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF063IRW bed narrowPeak optimal idr thresholded peaks ENCSR000BIK ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF112QCZ, ENCFF139MVJ, ENCFF987BIP 433752 ENCODE Processing Pipeline 2b484c7fd860486a55c118b84596c304 https://www.encodeproject.org/files/ENCFF063IRW/@@download/ENCFF063IRW.bed.gz hg19 released control low read depth, low read length, low read depth biological replicates with identical biosample ENCFF002CTK bed narrowPeak optimal idr thresholded peaks ENCSR000EVE ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens TCF7L2-human DNA see document see document False 2012-05-14 ENCODE 437958 ENCODE Consortium Analysis Working Group b6b4a4d0d1cbe37588a4d53cf3d70440 https://www.encodeproject.org/files/ENCFF002CTK/@@download/ENCFF002CTK.bed.gz hg19 released low read length, inconsistent platforms missing derived_from, biological replicates with identical biosample ENCFF338OGQ bed narrowPeak optimal idr thresholded peaks ENCSR274LVQ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF776-human DNA formaldehyde False 2017-02-21 ENCODE 1, 2 ENCFF001TDO, ENCFF180UKE, ENCFF377VYF, ENCFF774VDD 54740 ENCODE Processing Pipeline fde3912471885b2814b6788fd0258ba1 https://www.encodeproject.org/files/ENCFF338OGQ/@@download/ENCFF338OGQ.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF274TYW bed narrowPeak optimal idr thresholded peaks ENCSR000BVO ChIP-seq EFO:0001247 T47D cell line Homo sapiens JUND-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF242EJE, ENCFF289KHP, ENCFF772MXQ 164639 ENCODE Processing Pipeline a0226d35a19d707f0c8598c8549dc61d https://www.encodeproject.org/files/ENCFF274TYW/@@download/ENCFF274TYW.bed.gz hg19 released low read depth biological replicates with identical biosample ENCFF201MOM bed narrowPeak optimal idr thresholded peaks ENCSR445QRF ChIP-seq UBERON:0002107 liver tissue Homo sapiens HNF4A-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF088ETE, ENCFF618OVE, ENCFF901DDA 1163150 ENCODE Processing Pipeline a2e668e5d2b1eee01a1e10e713d8b6b6 https://www.encodeproject.org/files/ENCFF201MOM/@@download/ENCFF201MOM.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample ENCFF346PST bed narrowPeak optimal idr thresholded peaks ENCSR000BPC ChIP-seq EFO:0005234 PFSK-1 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF529HJK, ENCFF767AKC, ENCFF943JKE 431342 ENCODE Processing Pipeline c721bcdf22396821f56c61f2f987d9d5 https://www.encodeproject.org/files/ENCFF346PST/@@download/ENCFF346PST.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample ENCFF831MEQ bed narrowPeak optimal idr thresholded peaks ENCSR290ZOS ChIP-seq UBERON:0002107 liver tissue Homo sapiens EGR1-human DNA False 2018-02-08 ENCODE 1, 2 ENCFF001TDO, ENCFF145YNF, ENCFF618LWB, ENCFF963HHX 154457 ENCODE Processing Pipeline a9c85d1261d6986e36bde2bff9d695fc https://www.encodeproject.org/files/ENCFF831MEQ/@@download/ENCFF831MEQ.bed.gz hg19 released low read depth, antibody characterized with exemption biological replicates with identical biosample, experiment not submitted to GEO ENCFF288UUU bed narrowPeak optimal idr thresholded peaks ENCSR636YLV ChIP-seq EFO:0001086 A549 cell line Homo sapiens MAZ-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF072HSB, ENCFF472YFZ, ENCFF542JSY 73312 ENCODE Processing Pipeline 45aa3b730ac79670ffb336af6ab340d4 https://www.encodeproject.org/files/ENCFF288UUU/@@download/ENCFF288UUU.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF129ABL bed narrowPeak optimal idr thresholded peaks ENCSR636YLV ChIP-seq EFO:0001086 A549 cell line Homo sapiens MAZ-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF631NAL, ENCFF747WRX, ENCFF907QKO 62227 ENCODE Processing Pipeline f874d13bbe17428cc2342b49bb7f77b9 https://www.encodeproject.org/files/ENCFF129ABL/@@download/ENCFF129ABL.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF227PWE bed narrowPeak optimal idr thresholded peaks ENCSR800QIT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNF1A-human DNA False 2016-09-09 ENCODE 1, 2 ENCFF001TDO, ENCFF545UIM, ENCFF949TDA, ENCFF995FGG 252775 ENCODE Processing Pipeline 123eb7f896c8a4e756af0971f159b1b6 https://www.encodeproject.org/files/ENCFF227PWE/@@download/ENCFF227PWE.bed.gz hg19 released low read depth ENCFF070KLR bed narrowPeak optimal idr thresholded peaks ENCSR469WAO ChIP-seq EFO:0001086 A549 cell line Homo sapiens CBX2-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF231ONX, ENCFF322ADA, ENCFF679JWK 2093 ENCODE Processing Pipeline d26bfbc9614cda52c378710f0fde1c01 https://www.encodeproject.org/files/ENCFF070KLR/@@download/ENCFF070KLR.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth ENCFF840NOO bed narrowPeak optimal idr thresholded peaks ENCSR847DIT ChIP-seq UBERON:0002107 liver tissue Homo sapiens MAX-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF151FBW, ENCFF810FLM, ENCFF981QWW 547666 ENCODE Processing Pipeline 9e7471dd4ce8fad320cb14b095049694 https://www.encodeproject.org/files/ENCFF840NOO/@@download/ENCFF840NOO.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF258PIW bed narrowPeak optimal idr thresholded peaks ENCSR038GMB ChIP-seq UBERON:0002107 liver tissue Homo sapiens GABPA-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF045GWC, ENCFF556UZM, ENCFF634EKL 369257 ENCODE Processing Pipeline 95e75578d1c167b5e7e081f192c5011b https://www.encodeproject.org/files/ENCFF258PIW/@@download/ENCFF258PIW.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF495CSO bed narrowPeak optimal idr thresholded peaks ENCSR119ULQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOA4-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF048BXR, ENCFF347OPC, ENCFF605EKW 59229 ENCODE Processing Pipeline 83e3f77aa68bfdcc985baff44820a155 https://www.encodeproject.org/files/ENCFF495CSO/@@download/ENCFF495CSO.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF688LUP bed narrowPeak optimal idr thresholded peaks ENCSR516HUP ChIP-seq UBERON:0002107 liver tissue Homo sapiens ZBTB33-human DNA False 2016-09-19 ENCODE 1, 2 ENCFF001TDO, ENCFF080EAQ, ENCFF373SRH, ENCFF582WLM 345115 ENCODE Processing Pipeline 6261d9022afb9f39ecff325f89aa7120 https://www.encodeproject.org/files/ENCFF688LUP/@@download/ENCFF688LUP.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF786DKS bed narrowPeak optimal idr thresholded peaks ENCSR310NYI ChIP-seq UBERON:0002107 liver tissue Homo sapiens FOXA2-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF047WBC, ENCFF125PLO, ENCFF474ZPF 417839 ENCODE Processing Pipeline cea1a5e5ed8c5d53eed103f964f51b28 https://www.encodeproject.org/files/ENCFF786DKS/@@download/ENCFF786DKS.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF801YZV bed narrowPeak optimal idr thresholded peaks ENCSR400FSM ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-POLR2H-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF138QHW, ENCFF642AZQ, ENCFF923FBF 430559 ENCODE Processing Pipeline 21629fbc4edc4f436e21cde911048f95 https://www.encodeproject.org/files/ENCFF801YZV/@@download/ENCFF801YZV.bed.gz hg19 released control low read depth, mild to moderate bottlenecking, low read depth, missing genetic modification characterization, moderate library complexity ENCFF166FRO bed narrowPeak optimal idr thresholded peaks ENCSR746XEG ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFXL1-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF044ASF, ENCFF635ZSK, ENCFF763SSU 111900 ENCODE Processing Pipeline ecdcd45712ada557b780b8561c0c71c2 https://www.encodeproject.org/files/ENCFF166FRO/@@download/ENCFF166FRO.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption ENCFF002CWH bed narrowPeak optimal idr thresholded peaks ENCSR000EGJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens MYC-human DNA see document see document False 2012-05-14 ENCODE 521895 ENCODE Consortium Analysis Working Group 2afcc7647009b98a31ef5cc965732f63 https://www.encodeproject.org/files/ENCFF002CWH/@@download/ENCFF002CWH.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF465JKF bed narrowPeak optimal idr thresholded peaks ENCSR000EGJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens MYC-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF019DFB, ENCFF033VDX, ENCFF165VLE 538620 ENCODE Processing Pipeline 146303efe433182be7daba2298a9ffda https://www.encodeproject.org/files/ENCFF465JKF/@@download/ENCFF465JKF.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF167HYX bed narrowPeak optimal idr thresholded peaks ENCSR801RPW ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-GTF2A2-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF124LKA, ENCFF490ZQW, ENCFF796QIY 121570 ENCODE Processing Pipeline 38fe13495b413cb9d70bd0c99f9cfa0d https://www.encodeproject.org/files/ENCFF167HYX/@@download/ENCFF167HYX.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization ENCFF522JRK bed narrowPeak optimal idr thresholded peaks ENCSR000EFR ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZC3H11A-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF305IJI, ENCFF547MRJ, ENCFF726OZS 51017 ENCODE Processing Pipeline 81ec05387a90d3fd3d085fdfd8e8c470 https://www.encodeproject.org/files/ENCFF522JRK/@@download/ENCFF522JRK.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CHN bed narrowPeak optimal idr thresholded peaks ENCSR000BIF ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 412959 ENCODE Consortium Analysis Working Group a185d09c2f76fcf0396be3b27be0fb25 https://www.encodeproject.org/files/ENCFF002CHN/@@download/ENCFF002CHN.bed.gz hg19 archived low read length, mild to moderate bottlenecking, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF125SQT bed narrowPeak optimal idr thresholded peaks ENCSR000BIF ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF123VNC, ENCFF252XCG, ENCFF845PQC 641138 ENCODE Processing Pipeline 06ace6373b4324b29c9ecfe7f0dcf980 https://www.encodeproject.org/files/ENCFF125SQT/@@download/ENCFF125SQT.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent platforms biological replicates with identical biosample ENCFF809OOE bed narrowPeak optimal idr thresholded peaks ENCSR441VHN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IKZF1-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF413ANK, ENCFF526LHJ, ENCFF963HCJ 1251501 ENCODE Processing Pipeline 9dc6f420639e0a265f3f179b6b42713a https://www.encodeproject.org/files/ENCFF809OOE/@@download/ENCFF809OOE.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF633IHZ bed narrowPeak optimal idr thresholded peaks ENCSR036EGV ChIP-seq CL:1001606 foreskin keratinocyte primary cell Homo sapiens calcium 1.2 mM 2.5 day CTCF-human DNA formaldehyde False 2017-10-10 GGR 1, 2 ENCFF001TDO, ENCFF007ACV, ENCFF239HMM, ENCFF244MXM 1060208 ENCODE Processing Pipeline 5075db80d4e5d5c13519931167353be7 https://www.encodeproject.org/files/ENCFF633IHZ/@@download/ENCFF633IHZ.bed.gz hg19 released experiment not submitted to GEO ENCFF806GXB bed narrowPeak optimal idr thresholded peaks ENCSR785UCD ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF8-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF049BZC, ENCFF097NQM, ENCFF185PMB 50235 ENCODE Processing Pipeline e634275de9914bf4b87fc88c30cdd481 https://www.encodeproject.org/files/ENCFF806GXB/@@download/ENCFF806GXB.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF441IFB bed narrowPeak optimal idr thresholded peaks ENCSR000EFC ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens CHD1-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF427NVF, ENCFF668AVT, ENCFF888HHD 122821 ENCODE Processing Pipeline 9b32725c31092d45f18381db86e3eefa https://www.encodeproject.org/files/ENCFF441IFB/@@download/ENCFF441IFB.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002COG bed narrowPeak optimal idr thresholded peaks ENCSR000DYE ChIP-seq EFO:0001086 A549 cell line Homo sapiens RAD21-human DNA see document see document False 2012-05-14 ENCODE 604014 ENCODE Consortium Analysis Working Group cbd0c10b980cd8865823f5b8742e1b4c https://www.encodeproject.org/files/ENCFF002COG/@@download/ENCFF002COG.bed.gz hg19 archived low read length, inconsistent platforms, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF958VNQ bed narrowPeak optimal idr thresholded peaks ENCSR000DYE ChIP-seq EFO:0001086 A549 cell line Homo sapiens RAD21-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF067TKW, ENCFF425OPL, ENCFF907WEZ 448758 ENCODE Processing Pipeline f59819bf62d5b8f038e3dcc9d07920fb https://www.encodeproject.org/files/ENCFF958VNQ/@@download/ENCFF958VNQ.bed.gz hg19 released low read length, inconsistent platforms, inconsistent target of control experiment biological replicates with identical biosample ENCFF462CPT bed narrowPeak optimal idr thresholded peaks ENCSR492LTS ChIP-seq EFO:0002067 K562 cell line Homo sapiens BCLAF1-human DNA False 2017-02-02 ENCODE 1, 2 ENCFF001TDO, ENCFF027UPQ, ENCFF202AHW, ENCFF662CIT 61355 ENCODE Processing Pipeline e5f4357bf52033266e56f7a93118ed40 https://www.encodeproject.org/files/ENCFF462CPT/@@download/ENCFF462CPT.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF806BDC bed narrowPeak optimal idr thresholded peaks ENCSR175EOM ChIP-seq EFO:0002067 K562 cell line Homo sapiens EHMT2-human DNA False 2018-02-13 ENCODE 1, 2 ENCFF001TDO, ENCFF148ZUB, ENCFF315NKB, ENCFF603GSB 363033 ENCODE Processing Pipeline 4c0a8985ef6a22eda28694f0e09b57f6 https://www.encodeproject.org/files/ENCFF806BDC/@@download/ENCFF806BDC.bed.gz hg19 released antibody characterized with exemption experiment not submitted to GEO ENCFF002CIO bed narrowPeak optimal idr thresholded peaks ENCSR000BHZ ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 421529 ENCODE Consortium Analysis Working Group 42e49e00119db46ac1a214d2e64d3ac2 https://www.encodeproject.org/files/ENCFF002CIO/@@download/ENCFF002CIO.bed.gz hg19 archived control low read depth, low read length, low read depth biological replicates with identical biosample, missing derived_from missing control alignments ENCFF459QKR bed narrowPeak optimal idr thresholded peaks ENCSR000BHZ ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF158PRB, ENCFF350CMV, ENCFF979MCB 545091 ENCODE Processing Pipeline 20a2ddee4b5f6c9a2313f2b6af90d5a8 https://www.encodeproject.org/files/ENCFF459QKR/@@download/ENCFF459QKR.bed.gz hg19 released control low read depth, low read length, low read depth biological replicates with identical biosample missing control alignments ENCFF207YNL bed narrowPeak optimal idr thresholded peaks ENCSR735KEY ChIP-seq UBERON:0002107 liver tissue Homo sapiens FOXA1-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF712EUK, ENCFF841RCY, ENCFF924RTU 295835 ENCODE Processing Pipeline d9ed0e1afecb61a6948b1a641fbfa1b9 https://www.encodeproject.org/files/ENCFF207YNL/@@download/ENCFF207YNL.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF712AXK bed narrowPeak optimal idr thresholded peaks ENCSR707QWA ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR2F6-human DNA False 2016-06-28 ENCODE 1, 2 ENCFF001TDO, ENCFF106WRW, ENCFF134OVY, ENCFF604XWK 402996 ENCODE Processing Pipeline d4ef75a204c84efaad5df40feb9c957b https://www.encodeproject.org/files/ENCFF712AXK/@@download/ENCFF712AXK.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF511QHY bed narrowPeak optimal idr thresholded peaks ENCSR102KIN ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZMYM3-human DNA False 2016-10-12 ENCODE 1, 2 ENCFF001TDO, ENCFF204QNV, ENCFF438LLN, ENCFF925VOV 668402 ENCODE Processing Pipeline 2a540d117bdccfec94aa0f5dc33dc677 https://www.encodeproject.org/files/ENCFF511QHY/@@download/ENCFF511QHY.bed.gz hg19 released antibody characterized with exemption, mixed read lengths ENCFF076MSV bed narrowPeak optimal idr thresholded peaks ENCSR241LIH ChIP-seq EFO:0002067 K562 cell line Homo sapiens AFF1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF447WIA, ENCFF824QXV, ENCFF929HKG 189535 ENCODE Processing Pipeline a8d2daa22d837ec2dba4082ef01d10e6 https://www.encodeproject.org/files/ENCFF076MSV/@@download/ENCFF076MSV.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF813VLK bed narrowPeak optimal idr thresholded peaks ENCSR090ZDO ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens SUZ12-human DNA False 2016-11-18 ENCODE 1, 2 ENCFF001TDO, ENCFF230ONV, ENCFF599ICL, ENCFF761HEQ 20025 ENCODE Processing Pipeline 056a79d036d303f6d0cda17c93bb1e4f https://www.encodeproject.org/files/ENCFF813VLK/@@download/ENCFF813VLK.bed.gz hg19 released mild to moderate bottlenecking ENCFF404YMX bed narrowPeak optimal idr thresholded peaks ENCSR277DMR ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ETV1-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF421DGE, ENCFF645BHJ, ENCFF692PZN 364092 ENCODE Processing Pipeline 45811baa3b4f022a78ddb6fa4be88278 https://www.encodeproject.org/files/ENCFF404YMX/@@download/ENCFF404YMX.bed.gz hg19 released control low read depth, low read depth, missing genetic modification characterization ENCFF603AWL bed narrowPeak optimal idr thresholded peaks ENCSR309ELI ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZBTB1-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF008QTZ, ENCFF097ZJV, ENCFF360QVF 34361 ENCODE Processing Pipeline 9b250d30b8a2387c51eaf1945644eb53 https://www.encodeproject.org/files/ENCFF603AWL/@@download/ENCFF603AWL.bed.gz hg19 released borderline replicate concordance ENCFF267STV bed narrowPeak optimal idr thresholded peaks ENCSR534NZI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF195-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF010NQC, ENCFF142TSD, ENCFF729TIO 19560 ENCODE Processing Pipeline b2c997feb77125e003fd0cdb418b8d3c https://www.encodeproject.org/files/ENCFF267STV/@@download/ENCFF267STV.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF248VHN bed narrowPeak optimal idr thresholded peaks ENCSR302AWT ChIP-seq EFO:0002067 K562 cell line Homo sapiens FOXK2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF037YFB, ENCFF203SUN, ENCFF732HYH 358492 ENCODE Processing Pipeline 6617b946d9b9a9e353cf71f681323126 https://www.encodeproject.org/files/ENCFF248VHN/@@download/ENCFF248VHN.bed.gz hg19 released low read depth ENCFF210DMP bed narrowPeak optimal idr thresholded peaks ENCSR590CNM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens GATA4-human DNA False 2016-03-31 ENCODE 1, 2 ENCFF001TDO, ENCFF535NWA, ENCFF571MRI, ENCFF899MNG 213321 ENCODE Processing Pipeline 475820ca8d28d4a631ba7c8abc2cfa52 https://www.encodeproject.org/files/ENCFF210DMP/@@download/ENCFF210DMP.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF712TCJ bed narrowPeak optimal idr thresholded peaks ENCSR770AOR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ELF3-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF233SWX, ENCFF759QMB, ENCFF894NFO 683051 ENCODE Processing Pipeline f98bd0e50928b4854de250c17a364d3a https://www.encodeproject.org/files/ENCFF712TCJ/@@download/ENCFF712TCJ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF665EOZ bed narrowPeak optimal idr thresholded peaks ENCSR961WLZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-SOX5-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF061UUX, ENCFF066LZS, ENCFF338AGZ 673774 ENCODE Processing Pipeline dc39243c3b191952ac385581e35e25ef https://www.encodeproject.org/files/ENCFF665EOZ/@@download/ENCFF665EOZ.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CQP bed narrowPeak optimal idr thresholded peaks ENCSR000EBQ ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens BACH1-human DNA see document see document False 2012-05-14 ENCODE 295772 ENCODE Consortium Analysis Working Group c57049823cef0ab9af77fae6384cf1bd https://www.encodeproject.org/files/ENCFF002CQP/@@download/ENCFF002CQP.bed.gz hg19 archived low read length, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF977MDK bed narrowPeak optimal idr thresholded peaks ENCSR000EBQ ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens BACH1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF415TPT, ENCFF502ZML, ENCFF627CTC 231168 ENCODE Processing Pipeline f0d5e3cdd99adc2c94a24de809558a54 https://www.encodeproject.org/files/ENCFF977MDK/@@download/ENCFF977MDK.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF075MKV bed narrowPeak optimal idr thresholded peaks ENCSR500WXT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-RARA-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF405THC, ENCFF969XGP, ENCFF993HDF 730939 ENCODE Processing Pipeline a789327db791c42e638a1637faa50dd0 https://www.encodeproject.org/files/ENCFF075MKV/@@download/ENCFF075MKV.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF253NXR bed narrowPeak optimal idr thresholded peaks ENCSR175SZH ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZSCAN29-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF118YQO, ENCFF483NEI, ENCFF788QDP 323129 ENCODE Processing Pipeline ce16e91b56c848b604565d6e0c378f09 https://www.encodeproject.org/files/ENCFF253NXR/@@download/ENCFF253NXR.bed.gz hg19 released low read depth ENCFF126BCK bed narrowPeak optimal idr thresholded peaks ENCSR928KOR ChIP-seq EFO:0002067 K562 cell line Homo sapiens GMEB1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF154QJU, ENCFF369BMF, ENCFF942IAL 511446 ENCODE Processing Pipeline 8d0ce916d80715cec4752c1a6f79bd30 https://www.encodeproject.org/files/ENCFF126BCK/@@download/ENCFF126BCK.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF956LMS bed narrowPeak optimal idr thresholded peaks ENCSR757EMK ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens SUZ12-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF050ZNZ, ENCFF497GTZ, ENCFF706VXW 121082 ENCODE Processing Pipeline 6ca14a532bb29b2041757fdb0d29a730 https://www.encodeproject.org/files/ENCFF956LMS/@@download/ENCFF956LMS.bed.gz hg19 released ENCFF632MBO bed narrowPeak optimal idr thresholded peaks ENCSR813DCK ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SMAD1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF057LDF, ENCFF562WIC, ENCFF916SIZ 208040 ENCODE Processing Pipeline 77c0993b8896711fa45c03a67e592c7b https://www.encodeproject.org/files/ENCFF632MBO/@@download/ENCFF632MBO.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF666LZV bed narrowPeak optimal idr thresholded peaks ENCSR177XCS ChIP-seq EFO:0002067 K562 cell line Homo sapiens BRD9-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF155ELE, ENCFF794YNX, ENCFF827TVA 288183 ENCODE Processing Pipeline 26b2fd0f0f7be3a533a5d97eef32e3d3 https://www.encodeproject.org/files/ENCFF666LZV/@@download/ENCFF666LZV.bed.gz hg19 released low read depth experiment not submitted to GEO partially characterized antibody ENCFF422BXE bed narrowPeak optimal idr thresholded peaks ENCSR588AKU ChIP-seq EFO:0002067 K562 cell line Homo sapiens RUNX1-human DNA False 2016-03-31 ENCODE 1, 2 ENCFF001TDO, ENCFF011EFB, ENCFF206UIN, ENCFF689EEG 67757 ENCODE Processing Pipeline e97fc8a7872ed1a2adc9f51836bb71e1 https://www.encodeproject.org/files/ENCFF422BXE/@@download/ENCFF422BXE.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF209JJD bed narrowPeak optimal idr thresholded peaks ENCSR764OXF ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBM39-human DNA SDS formaldehyde False 2018-01-22 ENCODE 1, 2 ENCFF001TDO, ENCFF385SRC, ENCFF516RWD, ENCFF931FDJ 52334 ENCODE Processing Pipeline f2717e7e28bb23539039c99e1f4e2795 https://www.encodeproject.org/files/ENCFF209JJD/@@download/ENCFF209JJD.bed.gz hg19 released low read length, low read depth experiment not submitted to GEO missing control alignments ENCFF175IUO bed narrowPeak optimal idr thresholded peaks ENCSR632SHZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-NFE2L1-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF197SSW, ENCFF627BPL, ENCFF771POP 115143 ENCODE Processing Pipeline 1da9412addcc8fdacab4a65d0a9098ce https://www.encodeproject.org/files/ENCFF175IUO/@@download/ENCFF175IUO.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, missing genetic modification characterization ENCFF695CPH bed narrowPeak optimal idr thresholded peaks ENCSR178NTX ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-CUX1-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF010BGE, ENCFF758WOZ, ENCFF813QPT 108206 ENCODE Processing Pipeline 84c3f2ea4e6958d0b457e43c2470ec24 https://www.encodeproject.org/files/ENCFF695CPH/@@download/ENCFF695CPH.bed.gz hg19 released control low read depth, missing genetic modification characterization ENCFF262NLN bed narrowPeak optimal idr thresholded peaks ENCSR502GAX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF652-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF307BCB, ENCFF321SGB, ENCFF494IEN 267714 ENCODE Processing Pipeline 02b377ad2dacf738d5216e2c01733a4c https://www.encodeproject.org/files/ENCFF262NLN/@@download/ENCFF262NLN.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF998NID bed narrowPeak optimal idr thresholded peaks ENCSR159DQO ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ERF-human DNA False 2018-02-12 ENCODE 1, 2 ENCFF001TDO, ENCFF088RCG, ENCFF451NAF, ENCFF646BLW 570716 ENCODE Processing Pipeline 3c658d257fe24f1d0d25198f728c66ca https://www.encodeproject.org/files/ENCFF998NID/@@download/ENCFF998NID.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF484DKT bed narrowPeak optimal idr thresholded peaks ENCSR948QLZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens CBX1-human DNA False 2016-02-05 ENCODE 1, 2 ENCFF001TDO, ENCFF135TJX, ENCFF491AYX, ENCFF908UOT 257946 ENCODE Processing Pipeline 4ef8751c301c235ed067836ca888b02b https://www.encodeproject.org/files/ENCFF484DKT/@@download/ENCFF484DKT.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF820EVZ bed narrowPeak optimal idr thresholded peaks ENCSR142YYA ChIP-seq EFO:0002067 K562 cell line Homo sapiens EWSR1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF552VIT, ENCFF789TXE, ENCFF874KMM 34572 ENCODE Processing Pipeline b8fa23f2583309d50424112c5abc17ab https://www.encodeproject.org/files/ENCFF820EVZ/@@download/ENCFF820EVZ.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF042RAK bed narrowPeak optimal idr thresholded peaks ENCSR642VZY ChIP-seq EFO:0002067 K562 cell line Homo sapiens KDM4B-human DNA False 2016-04-01 ENCODE 1, 2 ENCFF001TDO, ENCFF274QRN, ENCFF321EBZ, ENCFF653KSG 143406 ENCODE Processing Pipeline 5999caca5c955d8fcf5642d2be510f69 https://www.encodeproject.org/files/ENCFF042RAK/@@download/ENCFF042RAK.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF888RHD bed narrowPeak optimal idr thresholded peaks ENCSR619QFT ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF300-human DNA formaldehyde False 2017-02-21 ENCODE 1, 2 ENCFF001TDO, ENCFF532QFS, ENCFF656TEP, ENCFF993QVX 31092 ENCODE Processing Pipeline 5224c65c84d2d40df9c20fc63eef1c8d https://www.encodeproject.org/files/ENCFF888RHD/@@download/ENCFF888RHD.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization missing control alignments ENCFF103OOV bed narrowPeak optimal idr thresholded peaks ENCSR072PWP ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF24-human DNA False 2017-06-26 ENCODE 1, 2 ENCFF001TDO, ENCFF593RSQ, ENCFF882PND, ENCFF956UUX 335127 ENCODE Processing Pipeline dc50267f97e94c42ba040408571a95a8 https://www.encodeproject.org/files/ENCFF103OOV/@@download/ENCFF103OOV.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF858RCV bed narrowPeak optimal idr thresholded peaks ENCSR589SNT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-TFE3-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF585FQF, ENCFF631RPF, ENCFF912JCV 385732 ENCODE Processing Pipeline 219803f44023f2e83c40b5f59d85bc48 https://www.encodeproject.org/files/ENCFF858RCV/@@download/ENCFF858RCV.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF426DUB bed narrowPeak optimal idr thresholded peaks ENCSR795IYP ChIP-seq EFO:0002067 K562 cell line Homo sapiens JUNB-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF127XOZ, ENCFF325KGM, ENCFF997SXB 95173 ENCODE Processing Pipeline 9f0888598e4c0a94620276153bf94d46 https://www.encodeproject.org/files/ENCFF426DUB/@@download/ENCFF426DUB.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF478DRD bed narrowPeak optimal idr thresholded peaks ENCSR706YUH ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SMARCA5-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF159DHF, ENCFF552GWT, ENCFF647XXJ 440679 ENCODE Processing Pipeline 545da82e161a822b31f7d0093071ede2 https://www.encodeproject.org/files/ENCFF478DRD/@@download/ENCFF478DRD.bed.gz hg19 released mild to moderate bottlenecking ENCFF609WOU bed narrowPeak optimal idr thresholded peaks ENCSR182QWU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF3-human DNA False 2017-03-16 ENCODE 1, 2 ENCFF001TDO, ENCFF363YVH, ENCFF393KLI, ENCFF642EEJ 159675 ENCODE Processing Pipeline 03c98b7c4b415a53bd0155369a2c64a3 https://www.encodeproject.org/files/ENCFF609WOU/@@download/ENCFF609WOU.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF920LEU bed narrowPeak optimal idr thresholded peaks ENCSR799GOY ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens YBX1-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF527RBD, ENCFF674AYU, ENCFF716TQR 88695 ENCODE Processing Pipeline 3294d59a75115ea2e7bba0de196a9231 https://www.encodeproject.org/files/ENCFF920LEU/@@download/ENCFF920LEU.bed.gz hg19 released antibody characterized with exemption ENCFF776BWX bed narrowPeak optimal idr thresholded peaks ENCSR009KLQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KLF16-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF141OZE, ENCFF261JCG, ENCFF649DTF 560467 ENCODE Processing Pipeline 422806e8b5cdb93aa6017a33d6d92015 https://www.encodeproject.org/files/ENCFF776BWX/@@download/ENCFF776BWX.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF710IEF bed narrowPeak optimal idr thresholded peaks ENCSR145TSJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ATF4-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF548UHD, ENCFF921XMX, ENCFF970NGB 764540 ENCODE Processing Pipeline e9766301d4959d4c2c900a42e3e9c2d2 https://www.encodeproject.org/files/ENCFF710IEF/@@download/ENCFF710IEF.bed.gz hg19 released mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody ENCFF086VOQ bed narrowPeak optimal idr thresholded peaks ENCSR421QXA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF571-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF173YLW, ENCFF662ZAH, ENCFF725RDL 28327 ENCODE Processing Pipeline 7bd05db1401f12a144f1e69acebf06f3 https://www.encodeproject.org/files/ENCFF086VOQ/@@download/ENCFF086VOQ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF561USY bed narrowPeak optimal idr thresholded peaks ENCSR230PTV ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBTB2-human DNA False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF537WGM, ENCFF551YGS, ENCFF621XGF 336516 ENCODE Processing Pipeline 4c12ec35960c97bf65d22a7ac9ebd2cf https://www.encodeproject.org/files/ENCFF561USY/@@download/ENCFF561USY.bed.gz hg19 released antibody characterized with exemption ENCFF431CEH bed narrowPeak optimal idr thresholded peaks ENCSR264RJX ChIP-seq EFO:0007950 GM23338 induced pluripotent stem cell line Homo sapiens POU5F1-human DNA False 2016-06-16 ENCODE 1, 2 ENCFF001TDO, ENCFF142NKY, ENCFF214FTU, ENCFF916HRC 139075 ENCODE Processing Pipeline 28fb1d0f3e4fa242a8e3be631f12ab66 https://www.encodeproject.org/files/ENCFF431CEH/@@download/ENCFF431CEH.bed.gz hg19 released low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF046WLI bed narrowPeak optimal idr thresholded peaks ENCSR264RJX ChIP-seq EFO:0007950 GM23338 induced pluripotent stem cell line Homo sapiens POU5F1-human DNA False 2016-06-16 ENCODE 1, 2 ENCFF001TDO, ENCFF132GYY, ENCFF598PVZ, ENCFF969HTA 118721 ENCODE Processing Pipeline f6ed66919a91beb16dcee1ffdd1e497e https://www.encodeproject.org/files/ENCFF046WLI/@@download/ENCFF046WLI.bed.gz hg19 archived low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF256LPL bed narrowPeak optimal idr thresholded peaks ENCSR074VAI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZIK1-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF291TVB, ENCFF320XKF, ENCFF735NBF 30356 ENCODE Processing Pipeline d47e85cbf1e485f349de3ad45562a9e5 https://www.encodeproject.org/files/ENCFF256LPL/@@download/ENCFF256LPL.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF986MHU bed narrowPeak optimal idr thresholded peaks ENCSR085DDI ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFXL1-human DNA False 2016-12-05 ENCODE 1, 2 ENCFF001TDO, ENCFF297LLA, ENCFF666TVL, ENCFF804ZDO 116563 ENCODE Processing Pipeline a5428ff5fcb7004b76804e57d613d5fd https://www.encodeproject.org/files/ENCFF986MHU/@@download/ENCFF986MHU.bed.gz hg19 released ENCFF839EPV bed narrowPeak optimal idr thresholded peaks ENCSR417DKD ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NFXL1-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF447SAN, ENCFF842DAK, ENCFF875DOP 44419 ENCODE Processing Pipeline 2ab64fcc59001a92495fc446b93c8748 https://www.encodeproject.org/files/ENCFF839EPV/@@download/ENCFF839EPV.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF920RYJ bed narrowPeak optimal idr thresholded peaks ENCSR628APV ChIP-seq EFO:0002067 K562 cell line Homo sapiens MCM5-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF501SOY, ENCFF875LKY, ENCFF984IHA 33676 ENCODE Processing Pipeline ef297c364374a7c5d686706dc6ed6a25 https://www.encodeproject.org/files/ENCFF920RYJ/@@download/ENCFF920RYJ.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF760HUV bed narrowPeak optimal idr thresholded peaks ENCSR932ZMX ChIP-seq EFO:0007950 GM23338 induced pluripotent stem cell line Homo sapiens CTCF-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF346PQE, ENCFF414BJO, ENCFF661MCK 1427699 ENCODE Processing Pipeline 4afa784408ac7c6d1be29f75f613ebeb https://www.encodeproject.org/files/ENCFF760HUV/@@download/ENCFF760HUV.bed.gz hg19 released mild to moderate bottlenecking, low read depth, antibody characterized with exemption NTR biosample ENCFF241JKV bed narrowPeak optimal idr thresholded peaks ENCSR303GFI ChIP-seq EFO:0002323 RWPE1 cell line Homo sapiens CTCF-human DNA False 2017-07-21 ENCODE 1, 2 ENCFF001TDO, ENCFF281EIU, ENCFF605AVV, ENCFF677QYW 930122 ENCODE Processing Pipeline 0a7755c1ba62ad85da95d6f5e7f2a2ad https://www.encodeproject.org/files/ENCFF241JKV/@@download/ENCFF241JKV.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF877ANE bed narrowPeak optimal idr thresholded peaks ENCSR162IEM ChIP-seq EFO:0002067 K562 cell line Homo sapiens MYBL2-human DNA False 2017-08-25 ENCODE 1, 2 ENCFF001TDO, ENCFF486FET, ENCFF534CIF, ENCFF677IKS 87379 ENCODE Processing Pipeline 5b3373ba623689cbcabf76d230465984 https://www.encodeproject.org/files/ENCFF877ANE/@@download/ENCFF877ANE.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, inconsistent platforms, moderate library complexity ENCFF080NBZ bed narrowPeak optimal idr thresholded peaks ENCSR298JCG ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOR1-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF053IVE, ENCFF269ZNE, ENCFF380AQD 166325 ENCODE Processing Pipeline e76d0ae33614c1e309ad3b9500285627 https://www.encodeproject.org/files/ENCFF080NBZ/@@download/ENCFF080NBZ.bed.gz hg19 released low read depth ENCFF901AHW bed narrowPeak optimal idr thresholded peaks ENCSR851XLW ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF830-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF263GIU, ENCFF350ETZ, ENCFF551KDQ 22828 ENCODE Processing Pipeline 93c38af1d8e55bb2b54ec7fbc84d696c https://www.encodeproject.org/files/ENCFF901AHW/@@download/ENCFF901AHW.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF937VZI bed narrowPeak optimal idr thresholded peaks ENCSR031TFS ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2A-human DNA False 2016-09-27 ENCODE 1, 2 ENCFF001TDO, ENCFF612BZJ, ENCFF670NDN, ENCFF763UDO 484306 ENCODE Processing Pipeline 42f2932c2c3ab72016c12df15687dfd1 https://www.encodeproject.org/files/ENCFF937VZI/@@download/ENCFF937VZI.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF859FVX bed narrowPeak optimal idr thresholded peaks ENCSR065XVO ChIP-seq EFO:0002067 K562 cell line Homo sapiens CHAMP1-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF069GYB, ENCFF216MFC, ENCFF869KQW 270063 ENCODE Processing Pipeline 49b2fe762e83e323d77be75057dea680 https://www.encodeproject.org/files/ENCFF859FVX/@@download/ENCFF859FVX.bed.gz hg19 released mild to moderate bottlenecking ENCFF459YEI bed narrowPeak optimal idr thresholded peaks ENCSR817HTJ ChIP-seq CL:1001606 foreskin keratinocyte primary cell Homo sapiens CTCF-human DNA formaldehyde False 2017-10-10 GGR 1, 2 ENCFF001TDO, ENCFF379YTS, ENCFF673WMU, ENCFF774PLL 1223933 ENCODE Processing Pipeline f817005605e7a1474a2e57fdfc3582b4 https://www.encodeproject.org/files/ENCFF459YEI/@@download/ENCFF459YEI.bed.gz hg19 released experiment not submitted to GEO ENCFF968EAL bed narrowPeak optimal idr thresholded peaks ENCSR353HEP ChIP-seq EFO:0002067 K562 cell line Homo sapiens TARDBP-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF027BJC, ENCFF032HCI, ENCFF139HGF 136479 ENCODE Processing Pipeline bba8e09d361ca0cf21a60e83afff4fcd https://www.encodeproject.org/files/ENCFF968EAL/@@download/ENCFF968EAL.bed.gz hg19 released low read depth ENCFF253FON bed narrowPeak optimal idr thresholded peaks ENCSR286PCG ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBED1-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF052CCG, ENCFF259MRC, ENCFF648RRL 104275 ENCODE Processing Pipeline 5fdeef786b8622e06a21d2c820b3da97 https://www.encodeproject.org/files/ENCFF253FON/@@download/ENCFF253FON.bed.gz hg19 released ENCFF374HJR bed narrowPeak optimal idr thresholded peaks ENCSR016UEH ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TARDBP-human DNA see document see document False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF025MTA, ENCFF168RYI, ENCFF500LLP 117764 ENCODE Processing Pipeline aa3bef7e4e1504bc5d0fe6d1cb3b61b9 https://www.encodeproject.org/files/ENCFF374HJR/@@download/ENCFF374HJR.bed.gz hg19 released borderline replicate concordance, low read depth ENCFF714XHL bed narrowPeak optimal idr thresholded peaks ENCSR583ACG ChIP-seq EFO:0002067 K562 cell line Homo sapiens BRD4-human DNA False 2017-01-08 ENCODE 1, 2 ENCFF001TDO, ENCFF118EOA, ENCFF267CBS, ENCFF875ITP 153694 ENCODE Processing Pipeline cfcf61727521d15bd154f71181a11674 https://www.encodeproject.org/files/ENCFF714XHL/@@download/ENCFF714XHL.bed.gz hg19 released control low read depth, inconsistent platforms ENCFF662MVX bed narrowPeak optimal idr thresholded peaks ENCSR411UYA ChIP-seq EFO:0002067 K562 cell line Homo sapiens MTA2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF084ILX, ENCFF605LJE, ENCFF850ENR 384677 ENCODE Processing Pipeline 21d4fc2074ca86610ddb256b957f4bfa https://www.encodeproject.org/files/ENCFF662MVX/@@download/ENCFF662MVX.bed.gz hg19 released ENCFF010STZ bed narrowPeak optimal idr thresholded peaks ENCSR594BNR ChIP-seq EFO:0002067 K562 cell line Homo sapiens HNRNPL-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF013REF, ENCFF501SMZ, ENCFF838LKB 141550 ENCODE Processing Pipeline 96e79c69c0c270cedd9c75735c44d6bf https://www.encodeproject.org/files/ENCFF010STZ/@@download/ENCFF010STZ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF616LVN bed narrowPeak optimal idr thresholded peaks ENCSR000FCB ChIP-seq EFO:0002067 K562 cell line Homo sapiens MITF-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF175RNO, ENCFF373SQY, ENCFF472YHR 130606 ENCODE Processing Pipeline b10e96e443b6ef583669219f71f72a11 https://www.encodeproject.org/files/ENCFF616LVN/@@download/ENCFF616LVN.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF142CPK bed narrowPeak optimal idr thresholded peaks ENCSR051DXE ChIP-seq EFO:0002067 K562 cell line Homo sapiens FUS-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF192IFJ, ENCFF530LEM, ENCFF644TNS 51659 ENCODE Processing Pipeline 9d78627b43ad26ec1f1ea21705cd7c92 https://www.encodeproject.org/files/ENCFF142CPK/@@download/ENCFF142CPK.bed.gz hg19 released low read length, low read depth ENCFF901JRM bed narrowPeak optimal idr thresholded peaks ENCSR736ZKL ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF148-human DNA formaldehyde False 2017-02-21 ENCODE 1, 2 ENCFF001TDO, ENCFF248EEY, ENCFF462BHV, ENCFF969JFO 68814 ENCODE Processing Pipeline f12ce089c0b22e41abf68af12c139976 https://www.encodeproject.org/files/ENCFF901JRM/@@download/ENCFF901JRM.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF096LRM bed narrowPeak optimal idr thresholded peaks ENCSR431TLD ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens SMARCE1-human DNA False 2017-06-26 ENCODE 1, 2 ENCFF001TDO, ENCFF357IME, ENCFF636YBB, ENCFF967VMV 337053 ENCODE Processing Pipeline feda79ce282349095e16b0b9427da1f4 https://www.encodeproject.org/files/ENCFF096LRM/@@download/ENCFF096LRM.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF743GXH bed narrowPeak optimal idr thresholded peaks ENCSR968QDP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SMARCE1-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF309BHZ, ENCFF819JTY, ENCFF854SVR 23579 ENCODE Processing Pipeline 7e76e0b508be4d32937a460c8f4a0e13 https://www.encodeproject.org/files/ENCFF743GXH/@@download/ENCFF743GXH.bed.gz hg19 released borderline replicate concordance ENCFF095TYO bed narrowPeak optimal idr thresholded peaks ENCSR382PVA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens GTF2F1-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF033KIA, ENCFF266MOP, ENCFF366ELK 110208 ENCODE Processing Pipeline 460e9f143793618480cb42863a585128 https://www.encodeproject.org/files/ENCFF095TYO/@@download/ENCFF095TYO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF646VQW bed narrowPeak optimal idr thresholded peaks ENCSR907MZR ChIP-seq EFO:0002067 K562 cell line Homo sapiens TRIM24-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF127MAS, ENCFF816EGL, ENCFF856IOQ 621283 ENCODE Processing Pipeline 74f7c15fa48b8b2fb599b23015bb2563 https://www.encodeproject.org/files/ENCFF646VQW/@@download/ENCFF646VQW.bed.gz hg19 released ENCFF950KWC bed narrowPeak optimal idr thresholded peaks ENCSR590QQP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FUS-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF112VKY, ENCFF599UGJ, ENCFF922ONM 132567 ENCODE Processing Pipeline 8b524916f309bebd032da25baa1041f7 https://www.encodeproject.org/files/ENCFF950KWC/@@download/ENCFF950KWC.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing control alignments ENCFF530TAO bed narrowPeak optimal idr thresholded peaks ENCSR925BFV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-GATAD2A-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF021GYN, ENCFF026GZI, ENCFF665EBH 934828 ENCODE Processing Pipeline d2dc8efce30ab53c23c6694071f80266 https://www.encodeproject.org/files/ENCFF530TAO/@@download/ENCFF530TAO.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF478GBC bed narrowPeak optimal idr thresholded peaks ENCSR019NPF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-SP5-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF136EWC, ENCFF480ZUI, ENCFF676GNF 416453 ENCODE Processing Pipeline e26e614b8f85a64d8257168f89ab9cbe https://www.encodeproject.org/files/ENCFF478GBC/@@download/ENCFF478GBC.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF953INM bed narrowPeak optimal idr thresholded peaks ENCSR441KFW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-MXD4-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF076AFD, ENCFF438FDS, ENCFF458LZF 356935 ENCODE Processing Pipeline e8cb5d27a11901e804834fc3efb65c1a https://www.encodeproject.org/files/ENCFF953INM/@@download/ENCFF953INM.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization characterization(s) pending review ENCFF055MVR bed narrowPeak optimal idr thresholded peaks ENCSR868JLS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens U2AF1-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF429PCJ, ENCFF466HRK, ENCFF947PDR 108075 ENCODE Processing Pipeline f2824ea37b440bba9e73ddddbafbf472 https://www.encodeproject.org/files/ENCFF055MVR/@@download/ENCFF055MVR.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance missing control alignments ENCFF468MIF bed narrowPeak optimal idr thresholded peaks ENCSR872EVQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens PCBP1-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF138FLC, ENCFF306RGV, ENCFF680PCI 210709 ENCODE Processing Pipeline ba9f061af426f9599bbfde4ae1061df9 https://www.encodeproject.org/files/ENCFF468MIF/@@download/ENCFF468MIF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF038QAU bed narrowPeak optimal idr thresholded peaks ENCSR991ADX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens U2AF2-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF243JAG, ENCFF572PWT, ENCFF713UPR 59703 ENCODE Processing Pipeline 05af5d42b9e4152c95b86de5913e67a8 https://www.encodeproject.org/files/ENCFF038QAU/@@download/ENCFF038QAU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF193FZK bed narrowPeak optimal idr thresholded peaks ENCSR337NQP ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ESRRA-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF111XHJ, ENCFF472FKC, ENCFF484BXC 37772 ENCODE Processing Pipeline 6d8a2ae1b22bb8666ac032eee0fec1c5 https://www.encodeproject.org/files/ENCFF193FZK/@@download/ENCFF193FZK.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF010MMQ bed narrowPeak optimal idr thresholded peaks ENCSR571BUF ChIP-seq EFO:0002067 K562 cell line Homo sapiens ARHGAP35-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF113AKA, ENCFF287JMK, ENCFF565ONA 95573 ENCODE Processing Pipeline c4d9d80170982a17ce764c0984b48c45 https://www.encodeproject.org/files/ENCFF010MMQ/@@download/ENCFF010MMQ.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF510XOE bed narrowPeak optimal idr thresholded peaks ENCSR092OVN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-FOXA3-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF256WMD, ENCFF387MFJ, ENCFF829PMF 798056 ENCODE Processing Pipeline 5d718eed7ca4f03d74d810546354f146 https://www.encodeproject.org/files/ENCFF510XOE/@@download/ENCFF510XOE.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF788CHY bed narrowPeak optimal idr thresholded peaks ENCSR856JJB ChIP-seq EFO:0007610 RWPE2 cell line Homo sapiens CTCF-human DNA False 2017-07-21 ENCODE 1, 2 ENCFF001TDO, ENCFF105NHW, ENCFF282SYC, ENCFF828HUH 1817661 ENCODE Processing Pipeline 250df0fa4ddeb6f03963a6a3429bacff https://www.encodeproject.org/files/ENCFF788CHY/@@download/ENCFF788CHY.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF398TWC bed narrowPeak optimal idr thresholded peaks ENCSR792IYC ChIP-seq EFO:0002067 K562 cell line Homo sapiens BCLAF1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF002NNQ, ENCFF039VDD, ENCFF519QDT 39607 ENCODE Processing Pipeline 95c94c1100d8e4fdb273a6e4dda01157 https://www.encodeproject.org/files/ENCFF398TWC/@@download/ENCFF398TWC.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF450SOG bed narrowPeak optimal idr thresholded peaks ENCSR269TNX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-GABPA-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF060UON, ENCFF254ROB, ENCFF981TNW 454562 ENCODE Processing Pipeline 97db8e93f9a5aa34a7c3dc136cde0431 https://www.encodeproject.org/files/ENCFF450SOG/@@download/ENCFF450SOG.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review ENCFF267BXB bed narrowPeak optimal idr thresholded peaks ENCSR044FMM ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-SALL2-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF592NPO, ENCFF597VSW, ENCFF840YXG 48891 ENCODE Processing Pipeline c4c5305fbefb69645113f28b301b21ce https://www.encodeproject.org/files/ENCFF267BXB/@@download/ENCFF267BXB.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization missing control alignments ENCFF995NIE bed narrowPeak optimal idr thresholded peaks ENCSR895HSJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMARCA5-human DNA False 2016-09-27 ENCODE 1, 2 ENCFF001TDO, ENCFF156CAB, ENCFF305RMT, ENCFF547QMS 357758 ENCODE Processing Pipeline 19f29cf8d02b673dca79fcc242980eb8 https://www.encodeproject.org/files/ENCFF995NIE/@@download/ENCFF995NIE.bed.gz hg19 released ENCFF294VWT bed narrowPeak optimal idr thresholded peaks ENCSR871TKJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens THRAP3-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF119HTJ, ENCFF196BYO, ENCFF613QHY 95376 ENCODE Processing Pipeline a6f8dcd67064d010c2255be4e069cee1 https://www.encodeproject.org/files/ENCFF294VWT/@@download/ENCFF294VWT.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms ENCFF755DGT bed narrowPeak optimal idr thresholded peaks ENCSR173EEH ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens COPS2-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF325AWC, ENCFF814THZ, ENCFF981ETO 17086 ENCODE Processing Pipeline d2f562a95129f2be1a1adf6ada4ab117 https://www.encodeproject.org/files/ENCFF755DGT/@@download/ENCFF755DGT.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF947SUP bed narrowPeak optimal idr thresholded peaks ENCSR429CLV ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens EZH2phosphoT487-human DNA False 2018-02-06 ENCODE 1, 2 ENCFF001TDO, ENCFF692CDD, ENCFF734XYJ, ENCFF941MND 9304 ENCODE Processing Pipeline 6f5ef776604ae4ef6e6428c16abcc69a https://www.encodeproject.org/files/ENCFF947SUP/@@download/ENCFF947SUP.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF381SBC bed narrowPeak optimal idr thresholded peaks ENCSR784VIQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NR2C1-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF041WNR, ENCFF119UKJ, ENCFF685WLQ 198894 ENCODE Processing Pipeline 4eae90be6d7c11e1201772554bef3773 https://www.encodeproject.org/files/ENCFF381SBC/@@download/ENCFF381SBC.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption ENCFF662RMK bed narrowPeak optimal idr thresholded peaks ENCSR327RFM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-PAF1-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF364IZN, ENCFF465YUV, ENCFF793TAZ 97371 ENCODE Processing Pipeline 3322334db4a5e6f39c1944567c16b080 https://www.encodeproject.org/files/ENCFF662RMK/@@download/ENCFF662RMK.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF490VVG bed narrowPeak optimal idr thresholded peaks ENCSR893WSB ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC2-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF368EUJ, ENCFF380RMA, ENCFF399PWD 687231 ENCODE Processing Pipeline fca556d6c89db48dae7c6c046425eeb5 https://www.encodeproject.org/files/ENCFF490VVG/@@download/ENCFF490VVG.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF569XCA bed narrowPeak optimal idr thresholded peaks ENCSR476BQA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NONO-human DNA False 2017-02-01 ENCODE 1, 2 ENCFF001TDO, ENCFF234DZJ, ENCFF437VMK, ENCFF875EQQ 43938 ENCODE Processing Pipeline fa06ed25bf1a2fc1f65dfe212ada330b https://www.encodeproject.org/files/ENCFF569XCA/@@download/ENCFF569XCA.bed.gz hg19 released borderline replicate concordance ENCFF038MZK bed narrowPeak optimal idr thresholded peaks ENCSR562NOP ChIP-seq EFO:0002167 DOHH2 cell line Homo sapiens EZH2phosphoT487-human DNA see document see document False 2017-01-31 ENCODE 1, 2 ENCFF001TDO, ENCFF539MLU, ENCFF669EAC, ENCFF945BEK 78237 ENCODE Processing Pipeline 0bafc2c533ebff4696c7daaefd3bf334 https://www.encodeproject.org/files/ENCFF038MZK/@@download/ENCFF038MZK.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, antibody characterized with exemption, mixed read lengths NTR biosample ENCFF445LQN bed narrowPeak optimal idr thresholded peaks ENCSR620DUQ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CREB1-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF040JIX, ENCFF783CTL, ENCFF790WFD 851936 ENCODE Processing Pipeline 70561ac7f1ddb5a4e1c45eb02ab2b02c https://www.encodeproject.org/files/ENCFF445LQN/@@download/ENCFF445LQN.bed.gz hg19 released ENCFF035FOK bed narrowPeak optimal idr thresholded peaks ENCSR173CTF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF580-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF186TPL, ENCFF204ZSE, ENCFF254LDX 387506 ENCODE Processing Pipeline 239c79ccbedbef467f24262c682114cd https://www.encodeproject.org/files/ENCFF035FOK/@@download/ENCFF035FOK.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF776YPS bed narrowPeak optimal idr thresholded peaks ENCSR886RYH ChIP-seq EFO:0002067 K562 cell line Homo sapiens NONO-human DNA False 2017-01-31 ENCODE 3, 4 ENCFF001TDO, ENCFF324CAZ, ENCFF433ZFX, ENCFF784OAB 232581 ENCODE Processing Pipeline 5c0614ca3f5ea89ffbd81ad107a5c28e https://www.encodeproject.org/files/ENCFF776YPS/@@download/ENCFF776YPS.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF336YRU bed narrowPeak optimal idr thresholded peaks ENCSR235OVI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-NFKBIZ-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF747HUJ, ENCFF885JHN, ENCFF933XJC 255799 ENCODE Processing Pipeline e66efb157f19a09eb2342f71add5062b https://www.encodeproject.org/files/ENCFF336YRU/@@download/ENCFF336YRU.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF879VLB bed narrowPeak optimal idr thresholded peaks ENCSR582ZOA ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NFIB-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF179ZRO, ENCFF625EBI, ENCFF902RAQ 318217 ENCODE Processing Pipeline 122ad4a31f037d52655f5c8faec47d31 https://www.encodeproject.org/files/ENCFF879VLB/@@download/ENCFF879VLB.bed.gz hg19 released ENCFF842WEF bed narrowPeak optimal idr thresholded peaks ENCSR027UFT ChIP-seq EFO:0006365 C4-2B cell line Homo sapiens ZFX-human DNA False 2017-05-18 ENCODE 1, 2 ENCFF001TDO, ENCFF647SSO, ENCFF826ULZ, ENCFF998YLT 347370 ENCODE Processing Pipeline 6f271660d54a0c592fbb46ce8ac25719 https://www.encodeproject.org/files/ENCFF842WEF/@@download/ENCFF842WEF.bed.gz hg19 released NTR biosample ENCFF698WAX bed narrowPeak optimal idr thresholded peaks ENCSR196HOM ChIP-seq CL:0002231 epithelial cell of prostate primary cell Homo sapiens CTCF-human DNA False 2017-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF276RMO, ENCFF344AQO, ENCFF759LYG 1874386 ENCODE Processing Pipeline 91702d6a98f8d9cd05674e5be55bb360 https://www.encodeproject.org/files/ENCFF698WAX/@@download/ENCFF698WAX.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption ENCFF821FWZ bed narrowPeak optimal idr thresholded peaks ENCSR686SOV ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NCOA3-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF307HAT, ENCFF568PRH, ENCFF751KOC 87444 ENCODE Processing Pipeline fff2c705a143fea85e22b8f7d06c186e https://www.encodeproject.org/files/ENCFF821FWZ/@@download/ENCFF821FWZ.bed.gz hg19 released borderline replicate concordance ENCFF259XYR bed narrowPeak optimal idr thresholded peaks ENCSR847XGE ChIP-seq EFO:0002095 22Rv1 cell line Homo sapiens 17β-hydroxy-5α-androstan-3-one 10 nM 4 hour CTCF-human DNA False 2017-06-29 ENCODE 1, 2 ENCFF001TDO, ENCFF011GSD, ENCFF166YLC, ENCFF465IOZ 1551773 ENCODE Processing Pipeline 02a67a4ed01b96ee32b7c7c06a2bb4cb https://www.encodeproject.org/files/ENCFF259XYR/@@download/ENCFF259XYR.bed.gz hg19 released mild to moderate bottlenecking NTR biosample ENCFF500ZLG bed narrowPeak optimal idr thresholded peaks ENCSR442VBJ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens RAD51-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF251IQI, ENCFF416REC, ENCFF456CDH 151143 ENCODE Processing Pipeline 5d4a367a225c6a84d3af1987fecf7168 https://www.encodeproject.org/files/ENCFF500ZLG/@@download/ENCFF500ZLG.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF052YIL bed narrowPeak optimal idr thresholded peaks ENCSR015TKV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens BCLAF1-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF593TJL, ENCFF624REB, ENCFF650KWX 5625 ENCODE Processing Pipeline d302d6e124651bc641b05621e8669fe0 https://www.encodeproject.org/files/ENCFF052YIL/@@download/ENCFF052YIL.bed.gz hg19 released mild to moderate bottlenecking ENCFF603ZTG bed narrowPeak optimal idr thresholded peaks ENCSR402JAC ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF574-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF025JML, ENCFF113NRF, ENCFF182RMK 79469 ENCODE Processing Pipeline e7ad7adc98859bc1860630ed5c788440 https://www.encodeproject.org/files/ENCFF603ZTG/@@download/ENCFF603ZTG.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF332ICQ bed narrowPeak optimal idr thresholded peaks ENCSR491EBY ChIP-seq EFO:0002067 K562 cell line Homo sapiens ARID2-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF576BTO, ENCFF828CXZ, ENCFF989TPD 219396 ENCODE Processing Pipeline 4716a1a4fe143684798d21330c0087b2 https://www.encodeproject.org/files/ENCFF332ICQ/@@download/ENCFF332ICQ.bed.gz hg19 released antibody characterized with exemption ENCFF852EYA bed narrowPeak optimal idr thresholded peaks ENCSR985MYI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF114-human DNA formaldehyde False 2017-05-17 ENCODE 2, 3 ENCFF001TDO, ENCFF045FYZ, ENCFF621LNT, ENCFF680MTL 29919 ENCODE Processing Pipeline 81a6d3f2c23abde31280f3d78e2aa8cf https://www.encodeproject.org/files/ENCFF852EYA/@@download/ENCFF852EYA.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF446FHX bed narrowPeak optimal idr thresholded peaks ENCSR248IMH ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NFRKB-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF610HTV, ENCFF887ZYJ, ENCFF924OFW 27172 ENCODE Processing Pipeline 662ff52d399651dc17f01ed9a22ef122 https://www.encodeproject.org/files/ENCFF446FHX/@@download/ENCFF446FHX.bed.gz hg19 released mild to moderate bottlenecking ENCFF033KXY bed narrowPeak optimal idr thresholded peaks ENCSR754ZHU ChIP-seq EFO:0002067 K562 cell line Homo sapiens SNRNP70-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF622THV, ENCFF626AAZ, ENCFF769MWV 17570 ENCODE Processing Pipeline c90f03895f7cadf139446946d20832a2 https://www.encodeproject.org/files/ENCFF033KXY/@@download/ENCFF033KXY.bed.gz hg19 released low read length, low read depth ENCFF250ZAH bed narrowPeak optimal idr thresholded peaks ENCSR812FNU ChIP-seq CL:1001606 foreskin keratinocyte primary cell Homo sapiens calcium 1.2 mM 5.5 day CTCF-human DNA formaldehyde False 2017-10-10 GGR 1, 2 ENCFF001TDO, ENCFF128OKK, ENCFF562OUS, ENCFF956IFC 1009516 ENCODE Processing Pipeline 8c4b57e46695bb74b34ca789b2be01ad https://www.encodeproject.org/files/ENCFF250ZAH/@@download/ENCFF250ZAH.bed.gz hg19 released experiment not submitted to GEO ENCFF027CYL bed narrowPeak optimal idr thresholded peaks ENCSR460XGV ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MNT-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF600NIF, ENCFF780FQB, ENCFF978HRR 23359 ENCODE Processing Pipeline 16be5a6879f034e9b5c4b6d81d2d3fdc https://www.encodeproject.org/files/ENCFF027CYL/@@download/ENCFF027CYL.bed.gz hg19 released ENCFF769GYG bed narrowPeak optimal idr thresholded peaks ENCSR807BGP ChIP-seq EFO:0002067 K562 cell line Homo sapiens MTA1-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF253PLF, ENCFF387NDE, ENCFF658ZHZ 334404 ENCODE Processing Pipeline 9721f8e11cc0a98b2e92a7ee4f682542 https://www.encodeproject.org/files/ENCFF769GYG/@@download/ENCFF769GYG.bed.gz hg19 released borderline replicate concordance ENCFF443EYO bed narrowPeak optimal idr thresholded peaks ENCSR362NWP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZNF24-human DNA False 2017-06-26 ENCODE 1, 2 ENCFF001TDO, ENCFF395YWQ, ENCFF859ZGV, ENCFF960SGY 147195 ENCODE Processing Pipeline 7f5a9423cdb84a36e4eb1a9e4d82cc96 https://www.encodeproject.org/files/ENCFF443EYO/@@download/ENCFF443EYO.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF566YUW bed narrowPeak optimal idr thresholded peaks ENCSR173ZVL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF592-human DNA False 2017-06-26 ENCODE 1, 2 ENCFF001TDO, ENCFF569JWR, ENCFF629PYS, ENCFF886RMX 226453 ENCODE Processing Pipeline e42b637c8a6e8fa11ce0322f1525c6d4 https://www.encodeproject.org/files/ENCFF566YUW/@@download/ENCFF566YUW.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF927JBT bed narrowPeak optimal idr thresholded peaks ENCSR818DQV ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-MAFG-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF421KPL, ENCFF638THQ, ENCFF703AYW 830198 ENCODE Processing Pipeline 3767fbcb94979dba34dfa376996af7a6 https://www.encodeproject.org/files/ENCFF927JBT/@@download/ENCFF927JBT.bed.gz hg19 released missing genetic modification characterization ENCFF351NCM bed narrowPeak optimal idr thresholded peaks ENCSR487ASM ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens SMARCA5-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF100HDM, ENCFF613VXB, ENCFF758TWM 208987 ENCODE Processing Pipeline 54b91aed2166e569f01d0ca36a259823 https://www.encodeproject.org/files/ENCFF351NCM/@@download/ENCFF351NCM.bed.gz hg19 released ENCFF996ZGL bed narrowPeak optimal idr thresholded peaks ENCSR350XWY ChIP-seq EFO:0002067 K562 cell line Homo sapiens C11orf30-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF486RQW, ENCFF559KAV, ENCFF820UXS 1088718 ENCODE Processing Pipeline 7dc77d245f171e4a785144bb7ec5342c https://www.encodeproject.org/files/ENCFF996ZGL/@@download/ENCFF996ZGL.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF421VCV bed narrowPeak optimal idr thresholded peaks ENCSR410DWC ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-PYGO2-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF021CLN, ENCFF311BXD, ENCFF430YKE 119381 ENCODE Processing Pipeline 8e82d2a59d192105c2a8862db60b61c7 https://www.encodeproject.org/files/ENCFF421VCV/@@download/ENCFF421VCV.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization ENCFF057ZUY bed narrowPeak optimal idr thresholded peaks ENCSR808AKZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens BCOR-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF279NYK, ENCFF636VOC, ENCFF763UFC 794464 ENCODE Processing Pipeline eb1f9eb14541c9c86ab5f62539332276 https://www.encodeproject.org/files/ENCFF057ZUY/@@download/ENCFF057ZUY.bed.gz hg19 released ENCFF445OFX bed narrowPeak optimal idr thresholded peaks ENCSR246MLJ ChIP-seq EFO:0002095 22Rv1 cell line Homo sapiens ZFX-human DNA False 2017-06-15 ENCODE 1, 2 ENCFF001TDO, ENCFF413CDN, ENCFF865UXS, ENCFF881NRM 7060 ENCODE Processing Pipeline ab0ec33cf8865cad353c7eac9c884812 https://www.encodeproject.org/files/ENCFF445OFX/@@download/ENCFF445OFX.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption NTR biosample ENCFF763GJP bed narrowPeak optimal idr thresholded peaks ENCSR730TBC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MNT-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF368MWT, ENCFF617PCO, ENCFF641DSK 217965 ENCODE Processing Pipeline 0416804df0cf36ce6c564ea3183bee52 https://www.encodeproject.org/files/ENCFF763GJP/@@download/ENCFF763GJP.bed.gz hg19 released ENCFF396DNK bed narrowPeak optimal idr thresholded peaks ENCSR898XMH ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZFP91-human DNA False 2018-01-31 ENCODE 1, 2 ENCFF001TDO, ENCFF456OOM, ENCFF581AQD, ENCFF858GTB 266711 ENCODE Processing Pipeline d6cc530832de9f014b957dd7347ce74c https://www.encodeproject.org/files/ENCFF396DNK/@@download/ENCFF396DNK.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF017LZE bed narrowPeak optimal idr thresholded peaks ENCSR725VFL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TCF12-human DNA False 2017-06-07 ENCODE 1, 2 ENCFF001TDO, ENCFF531FOV, ENCFF595TGO, ENCFF601WVR 290462 ENCODE Processing Pipeline 67d4968a8aa146ff684f8bb6aabb0364 https://www.encodeproject.org/files/ENCFF017LZE/@@download/ENCFF017LZE.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption ENCFF310AGG bed narrowPeak optimal idr thresholded peaks ENCSR171CAY ChIP-seq EFO:0002067 K562 cell line Homo sapiens E2F7-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF384FEX, ENCFF511NCS, ENCFF649PUW 59622 ENCODE Processing Pipeline 8660b9cd4ca65717017ecba1ad02391d https://www.encodeproject.org/files/ENCFF310AGG/@@download/ENCFF310AGG.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF313BFM bed narrowPeak optimal idr thresholded peaks ENCSR699YFX ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CLOCK-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF320SOL, ENCFF467LRK, ENCFF535WCX 162137 ENCODE Processing Pipeline 8cce725c439176ebe35d13b734e7c48f https://www.encodeproject.org/files/ENCFF313BFM/@@download/ENCFF313BFM.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking, partially characterized antibody ENCFF768EYB bed narrowPeak optimal idr thresholded peaks ENCSR516VQK ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF174-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF084ORS, ENCFF342EPY, ENCFF471IMS 38728 ENCODE Processing Pipeline 72a1d6dc8b0f77aba1d1ee7a2affa021 https://www.encodeproject.org/files/ENCFF768EYB/@@download/ENCFF768EYB.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization missing control alignments ENCFF356ASJ bed narrowPeak optimal idr thresholded peaks ENCSR709DRM ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-E2F5-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF118EXB, ENCFF321FDW, ENCFF360GCE 299967 ENCODE Processing Pipeline 85a7606ad879c0327dc0b15b3eec8947 https://www.encodeproject.org/files/ENCFF356ASJ/@@download/ENCFF356ASJ.bed.gz hg19 released missing genetic modification characterization ENCFF526HLP bed narrowPeak optimal idr thresholded peaks ENCSR030TJP ChIP-seq EFO:0002067 K562 cell line Homo sapiens DACH1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF218RDF, ENCFF367IRL, ENCFF876GAB 350462 ENCODE Processing Pipeline d0c60d91b1a0ec1fd66b2497426f4642 https://www.encodeproject.org/files/ENCFF526HLP/@@download/ENCFF526HLP.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF408SNO bed narrowPeak optimal idr thresholded peaks ENCSR167JBG ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-DIDO1-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF307MIA, ENCFF377KNC, ENCFF816UNQ 122119 ENCODE Processing Pipeline 303ed3ff929ea3bdad495908705d0662 https://www.encodeproject.org/files/ENCFF408SNO/@@download/ENCFF408SNO.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF512YNV bed narrowPeak optimal idr thresholded peaks ENCSR854ORP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF350-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF405JCS, ENCFF450DKI, ENCFF586MTZ 68354 ENCODE Processing Pipeline 78e2bf2ae843b0c4a4d42772afb74972 https://www.encodeproject.org/files/ENCFF512YNV/@@download/ENCFF512YNV.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization missing control alignments ENCFF561IZB bed narrowPeak optimal idr thresholded peaks ENCSR154EIH ChIP-seq EFO:0002067 K562 cell line Homo sapiens TRIP13-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF372LVB, ENCFF733BCO, ENCFF971BFZ 49333 ENCODE Processing Pipeline f2c0a575184e1392df356ca4a32d0f8f https://www.encodeproject.org/files/ENCFF561IZB/@@download/ENCFF561IZB.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF802XZN bed narrowPeak optimal idr thresholded peaks ENCSR608HVP ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-KLF13-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF119DBB, ENCFF163SYH, ENCFF367KYN 180679 ENCODE Processing Pipeline c2b97dbdcdb1a3eb640515e00cd7a237 https://www.encodeproject.org/files/ENCFF802XZN/@@download/ENCFF802XZN.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, missing genetic modification characterization ENCFF155SPQ bed narrowPeak optimal idr thresholded peaks ENCSR315NAC ChIP-seq EFO:0002071 LNCAP cell line Homo sapiens CTCF-human DNA False 2017-06-29 ENCODE 1, 2 ENCFF001TDO, ENCFF263EYR, ENCFF930VYW, ENCFF977TIL 966701 ENCODE Processing Pipeline 9e3c6202b70ffd4857cfa6a4429b30c2 https://www.encodeproject.org/files/ENCFF155SPQ/@@download/ENCFF155SPQ.bed.gz hg19 released mild to moderate bottlenecking ENCFF714HWJ bed narrowPeak optimal idr thresholded peaks ENCSR578CXC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF644-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF246CXS, ENCFF362LIP, ENCFF701KPJ 382754 ENCODE Processing Pipeline 68326637a68025a67960362ae8e917af https://www.encodeproject.org/files/ENCFF714HWJ/@@download/ENCFF714HWJ.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF104YWL bed narrowPeak optimal idr thresholded peaks ENCSR616WEG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-HBP1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF033FPH, ENCFF216XJM, ENCFF321CVZ 277454 ENCODE Processing Pipeline a50703f33fc1527de3069617ddc8f8e1 https://www.encodeproject.org/files/ENCFF104YWL/@@download/ENCFF104YWL.bed.gz hg19 released control low read depth, borderline replicate concordance, low read depth, missing genetic modification characterization characterization(s) pending review ENCFF144BSH bed narrowPeak optimal idr thresholded peaks ENCSR503GVO ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens ZFX-human DNA False 2017-09-07 ENCODE 1, 2 ENCFF001TDO, ENCFF437EHR, ENCFF610MUA, ENCFF939NVJ 446793 ENCODE Processing Pipeline 136660c4dfc08cf2e1a901894c44e523 https://www.encodeproject.org/files/ENCFF144BSH/@@download/ENCFF144BSH.bed.gz hg19 released NTR biosample ENCFF062ARS bed narrowPeak optimal idr thresholded peaks ENCSR272JAT ChIP-seq EFO:0002067 K562 cell line Homo sapiens CBX5-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF361FQK, ENCFF843XJF, ENCFF978SSL 127162 ENCODE Processing Pipeline 169dba7b829155124d33176148608d77 https://www.encodeproject.org/files/ENCFF062ARS/@@download/ENCFF062ARS.bed.gz hg19 released borderline replicate concordance, low read depth ENCFF534CKB bed narrowPeak optimal idr thresholded peaks ENCSR839XZU ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CREM-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF263KGZ, ENCFF510TYC, ENCFF874IMP 555303 ENCODE Processing Pipeline 9bde60dc90e039a208a7b9b7abedd50c https://www.encodeproject.org/files/ENCFF534CKB/@@download/ENCFF534CKB.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF305ICK bed narrowPeak optimal idr thresholded peaks ENCSR501DKS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TCF7-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF508MRO, ENCFF925ZGX, ENCFF988AWI 177224 ENCODE Processing Pipeline a4d821726cb81b6e654150bb39ba9b05 https://www.encodeproject.org/files/ENCFF305ICK/@@download/ENCFF305ICK.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF665FHC bed narrowPeak optimal idr thresholded peaks ENCSR093FKD ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-CREB3-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF313HJO, ENCFF328JKG, ENCFF572YZB 215831 ENCODE Processing Pipeline 13b3ccebe630aa070e48ffa45ad69399 https://www.encodeproject.org/files/ENCFF665FHC/@@download/ENCFF665FHC.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization ENCFF803LEC bed narrowPeak optimal idr thresholded peaks ENCSR997NGQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens XRCC3-human DNA False 2017-09-26 ENCODE 1, 2 ENCFF001TDO, ENCFF603XIY, ENCFF676YFV, ENCFF784XMU 39105 ENCODE Processing Pipeline c972881736ef420770b268a96d13b327 https://www.encodeproject.org/files/ENCFF803LEC/@@download/ENCFF803LEC.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity ENCFF911VSD bed narrowPeak optimal idr thresholded peaks ENCSR552YGL ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-NFE2-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF140CQS, ENCFF619AGT, ENCFF688MMW 793523 ENCODE Processing Pipeline d730a03d8ebbaaa61fa7df7a259778da https://www.encodeproject.org/files/ENCFF911VSD/@@download/ENCFF911VSD.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF606CCB bed narrowPeak optimal idr thresholded peaks ENCSR620VIC ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-CEBPG-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF014ZNK, ENCFF593QEG, ENCFF851RZA 580428 ENCODE Processing Pipeline 36b3049693b2c5d3cc2c9991f4dbc99a https://www.encodeproject.org/files/ENCFF606CCB/@@download/ENCFF606CCB.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization ENCFF632ZBP bed narrowPeak optimal idr thresholded peaks ENCSR919CZU ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-EGR2-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF121JDA, ENCFF132EAK, ENCFF633YFP 1050538 ENCODE Processing Pipeline d5d84a93f9b9347d258bc4620b75ba3a https://www.encodeproject.org/files/ENCFF632ZBP/@@download/ENCFF632ZBP.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF026PKV bed narrowPeak optimal idr thresholded peaks ENCSR125DNC ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF394-human DNA formaldehyde False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF421MGV, ENCFF575NXE, ENCFF704PXA 581745 ENCODE Processing Pipeline 8176321e0d9cccba3f0d6a29cdd52f57 https://www.encodeproject.org/files/ENCFF026PKV/@@download/ENCFF026PKV.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, missing genetic modification characterization missing control alignments ENCFF267FXT bed narrowPeak optimal idr thresholded peaks ENCSR382WLL ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ELK1-human DNA False 2016-02-16 ENCODE 1, 3 ENCFF001TDO, ENCFF789XUC, ENCFF856LKK, ENCFF927LSX 149657 ENCODE Processing Pipeline 79a57420a683f66d501e513cb37dfda0 https://www.encodeproject.org/files/ENCFF267FXT/@@download/ENCFF267FXT.bed.gz hg19 released borderline replicate concordance duplicate lane review ENCFF617CAZ bed narrowPeak optimal idr thresholded peaks ENCSR047LSJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens TAF15-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF151HYU, ENCFF690XXK, ENCFF789HHG 14792 ENCODE Processing Pipeline 454b3aaf30cc5d814dc031bb5e8ca333 https://www.encodeproject.org/files/ENCFF617CAZ/@@download/ENCFF617CAZ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity ENCFF693ZXB bed narrowPeak optimal idr thresholded peaks ENCSR759BDG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-BCL6-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF035ILO, ENCFF382EUL, ENCFF855PEP 668818 ENCODE Processing Pipeline a1570bdc5faa2092aabd6469237691e8 https://www.encodeproject.org/files/ENCFF693ZXB/@@download/ENCFF693ZXB.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF744SVC bed narrowPeak optimal idr thresholded peaks ENCSR674SCQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF354B-human DNA False 2017-02-13 ENCODE 1, 2 ENCFF001TDO, ENCFF225EQY, ENCFF228ORA, ENCFF849XOM 92239 ENCODE Processing Pipeline 640dd68dc008f1df30cb7d6f32a82845 https://www.encodeproject.org/files/ENCFF744SVC/@@download/ENCFF744SVC.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization ENCFF972IQJ bed narrowPeak optimal idr thresholded peaks ENCSR130VQL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-PPARG-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF392WIW, ENCFF544RTZ, ENCFF704XPH 438756 ENCODE Processing Pipeline 6146370743593070c24331cfe1551cf0 https://www.encodeproject.org/files/ENCFF972IQJ/@@download/ENCFF972IQJ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF319BCP bed narrowPeak optimal idr thresholded peaks ENCSR740NPG ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-BACH1-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF469YOH, ENCFF772XDS, ENCFF820FCA 249611 ENCODE Processing Pipeline 1a3945bf43921b404e8afa5fea99ca48 https://www.encodeproject.org/files/ENCFF319BCP/@@download/ENCFF319BCP.bed.gz hg19 released missing genetic modification characterization ENCFF120IDE bed narrowPeak optimal idr thresholded peaks ENCSR822LBD ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBFOX2-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF309FGP, ENCFF470QLV, ENCFF590JZV 998359 ENCODE Processing Pipeline 4362859aa12a3ba4328a7931a50d40a3 https://www.encodeproject.org/files/ENCFF120IDE/@@download/ENCFF120IDE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF545KZH bed narrowPeak optimal idr thresholded peaks ENCSR115PIK ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-MIER2-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF378HNS, ENCFF422ZGT, ENCFF828DTV 267764 ENCODE Processing Pipeline fd8d02890354779f4ffeccdb3fe95492 https://www.encodeproject.org/files/ENCFF545KZH/@@download/ENCFF545KZH.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF402MOI bed narrowPeak optimal idr thresholded peaks ENCSR966PJY ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-MIXL1-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF349QFY, ENCFF453VKQ, ENCFF780MVK 450880 ENCODE Processing Pipeline e3e8a3a41e6dc378f71169bf4355e0fc https://www.encodeproject.org/files/ENCFF402MOI/@@download/ENCFF402MOI.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF716MKU bed narrowPeak optimal idr thresholded peaks ENCSR210HBN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-IKZF5-human DNA False 2018-02-12 ENCODE 1, 2 ENCFF001TDO, ENCFF243RSC, ENCFF544WYW, ENCFF654CCR 530108 ENCODE Processing Pipeline e8448b8cc9fdc022242ae89016faa9ac https://www.encodeproject.org/files/ENCFF716MKU/@@download/ENCFF716MKU.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF003IPS bed narrowPeak optimal idr thresholded peaks ENCSR745VSQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-GMEB2-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF256UTK, ENCFF720MSK, ENCFF814AHA 95590 ENCODE Processing Pipeline a257ff36c4713239dd04cd1b7758fa23 https://www.encodeproject.org/files/ENCFF003IPS/@@download/ENCFF003IPS.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF186QUP bed narrowPeak optimal idr thresholded peaks ENCSR189YMA ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-VEZF1-human DNA False 2017-11-08 ENCODE 3, 4 ENCFF001TDO, ENCFF349KFP, ENCFF531FSD, ENCFF568CWO 824002 ENCODE Processing Pipeline e8579645ecac6889f007fbc6d51bd658 https://www.encodeproject.org/files/ENCFF186QUP/@@download/ENCFF186QUP.bed.gz hg19 released missing genetic modification characterization experiment not submitted to GEO ENCFF002CLM bed narrowPeak optimal idr thresholded peaks ENCSR000BQB ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens POLR2A-human DNA see document see document False 2012-02-29 ENCODE 416360 ENCODE Consortium Analysis Working Group f781dd9a868d691299bcc5c5009c691b https://www.encodeproject.org/files/ENCFF002CLM/@@download/ENCFF002CLM.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample, missing derived_from ENCFF876VZQ bed narrowPeak optimal idr thresholded peaks ENCSR000BQB ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens POLR2A-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF297ZIE, ENCFF510UHF, ENCFF704JVW 503748 ENCODE Processing Pipeline 701ca68b5efae47fa8d14458cd27fdf3 https://www.encodeproject.org/files/ENCFF876VZQ/@@download/ENCFF876VZQ.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample ENCFF002CTX bed narrowPeak optimal idr thresholded peaks ENCSR000EED ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CHD2-human DNA see document see document False 2011-10-29 ENCODE 132999 ENCODE Consortium Analysis Working Group b8b76f23f457c1d4165f9dd8d5a28365 https://www.encodeproject.org/files/ENCFF002CTX/@@download/ENCFF002CTX.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF567BMG bed narrowPeak optimal idr thresholded peaks ENCSR000EED ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CHD2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF228GBX, ENCFF611GBW, ENCFF624UAC 132344 ENCODE Processing Pipeline 3a5a75bbc4d3f8638891b2d041c1a944 https://www.encodeproject.org/files/ENCFF567BMG/@@download/ENCFF567BMG.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF730URE bed narrowPeak optimal idr thresholded peaks ENCSR690GUG ChIP-seq EFO:0002067 K562 cell line Homo sapiens U2AF1-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF473NOQ, ENCFF658SVX, ENCFF948OFI 82082 ENCODE Processing Pipeline 6da5084fceeea43dc8aba95ea3187c52 https://www.encodeproject.org/files/ENCFF730URE/@@download/ENCFF730URE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF665HTJ bed narrowPeak optimal idr thresholded peaks ENCSR430JGJ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-THRB-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF148YIQ, ENCFF268UTN, ENCFF591FQI 278865 ENCODE Processing Pipeline 81d97c0e755012706e3cd0c23fdc0f0c https://www.encodeproject.org/files/ENCFF665HTJ/@@download/ENCFF665HTJ.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CTQ bed narrowPeak optimal idr thresholded peaks ENCSR000EVG ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens ZNF274-human DNA see document see document False 2011-10-29 ENCODE 2349 ENCODE Consortium Analysis Working Group e6be10ccea019d58d0316cc3e758334e https://www.encodeproject.org/files/ENCFF002CTQ/@@download/ENCFF002CTQ.bed.gz hg19 released low read length, inconsistent platforms, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read length ENCFF099CBG bed narrowPeak optimal idr thresholded peaks ENCSR757EKM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KLF6-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF215GXV, ENCFF360QSJ, ENCFF670VGU 323418 ENCODE Processing Pipeline 53566a9b3029223914026dab1563b320 https://www.encodeproject.org/files/ENCFF099CBG/@@download/ENCFF099CBG.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF973OME bed narrowPeak optimal idr thresholded peaks ENCSR979QYJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens MNT-human DNA False 2017-01-27 ENCODE 1, 2 ENCFF001TDO, ENCFF215LBC, ENCFF513RYM, ENCFF671OVE 404380 ENCODE Processing Pipeline 19ef8e287c2b6736403247c2b5842fef https://www.encodeproject.org/files/ENCFF973OME/@@download/ENCFF973OME.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF396GUH bed narrowPeak optimal idr thresholded peaks ENCSR440VKE ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ADNP-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF590LRH, ENCFF603BTL, ENCFF748XDB 328085 ENCODE Processing Pipeline c0f9021391f0142e862d9de195e2fccc https://www.encodeproject.org/files/ENCFF396GUH/@@download/ENCFF396GUH.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF456YII bed narrowPeak optimal idr thresholded peaks ENCSR828NCB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens GATAD2B-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF040LOQ, ENCFF271HBJ, ENCFF855RKW 635087 ENCODE Processing Pipeline d393dfe420253ec3d9141425df3f5a5b https://www.encodeproject.org/files/ENCFF456YII/@@download/ENCFF456YII.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF701MXF bed narrowPeak optimal idr thresholded peaks ENCSR017GBO ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-TFDP1-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF250VQN, ENCFF676RSO, ENCFF833HIY 415746 ENCODE Processing Pipeline 708b867532b9183badb53e580e240bf4 https://www.encodeproject.org/files/ENCFF701MXF/@@download/ENCFF701MXF.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization ENCFF349MPF bed narrowPeak optimal idr thresholded peaks ENCSR509FWH ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens DPF2-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF150YMV, ENCFF496AHM, ENCFF943NIH 812699 ENCODE Processing Pipeline 811b29846fc1fc213785d04af598d88f https://www.encodeproject.org/files/ENCFF349MPF/@@download/ENCFF349MPF.bed.gz hg19 released mild to moderate bottlenecking ENCFF843TJJ bed narrowPeak optimal idr thresholded peaks ENCSR924GRG ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB49-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF715YVZ, ENCFF776BTO, ENCFF789TTE 18563 ENCODE Processing Pipeline 6035b416535319d52c8da2b4d71be47f https://www.encodeproject.org/files/ENCFF843TJJ/@@download/ENCFF843TJJ.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF665CIR bed narrowPeak optimal idr thresholded peaks ENCSR514EOE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens BRD4-human DNA False 2017-08-12 ENCODE 1, 2 ENCFF001TDO, ENCFF048ORT, ENCFF535RVB, ENCFF642BLW 93924 ENCODE Processing Pipeline d36751a4faacb8a2dc633effa58b28d1 https://www.encodeproject.org/files/ENCFF665CIR/@@download/ENCFF665CIR.bed.gz hg19 released borderline replicate concordance, low read depth ENCFF721LDD bed narrowPeak optimal idr thresholded peaks ENCSR011PEI ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF175-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF195EMK, ENCFF260RNL, ENCFF472SCD 349948 ENCODE Processing Pipeline ce3af08120a96fe3dd29ae6b4b209bae https://www.encodeproject.org/files/ENCFF721LDD/@@download/ENCFF721LDD.bed.gz hg19 released control low read depth, mild to moderate bottlenecking, low read depth, missing genetic modification characterization ENCFF287NXV bed narrowPeak optimal idr thresholded peaks ENCSR894QWM ChIP-seq EFO:0005724 MM.1S cell line Homo sapiens EZH2phosphoT487-human DNA False 2018-02-06 ENCODE 1, 2 ENCFF001TDO, ENCFF370UMM, ENCFF865JLD, ENCFF989VGU 18478 ENCODE Processing Pipeline d102157a37eff9c1a140a40c66dfb87e https://www.encodeproject.org/files/ENCFF287NXV/@@download/ENCFF287NXV.bed.gz hg19 released low read length, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF386TTQ bed narrowPeak optimal idr thresholded peaks ENCSR502NRF ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ELF1-human DNA False 2017-06-26 ENCODE 1, 2 ENCFF001TDO, ENCFF138HSD, ENCFF491EBX, ENCFF938JGP 383450 ENCODE Processing Pipeline 9d08e04428458646839522bdc4265354 https://www.encodeproject.org/files/ENCFF386TTQ/@@download/ENCFF386TTQ.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF462JFW bed narrowPeak optimal idr thresholded peaks ENCSR706BJO ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZBTB11-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF162YHD, ENCFF847LNA, ENCFF999XQG 421045 ENCODE Processing Pipeline cbf4d9f37773b9077321587efc291d1d https://www.encodeproject.org/files/ENCFF462JFW/@@download/ENCFF462JFW.bed.gz hg19 released missing genetic modification characterization ENCFF201ZGY bed narrowPeak optimal idr thresholded peaks ENCSR896UBV ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-REST-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF162FCA, ENCFF650FDP, ENCFF701BYF 399407 ENCODE Processing Pipeline 8d79ea6bdeec1a243ea9b73e4941f75a https://www.encodeproject.org/files/ENCFF201ZGY/@@download/ENCFF201ZGY.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF313ZNM bed narrowPeak optimal idr thresholded peaks ENCSR283MWQ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF133-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF263ZII, ENCFF434RXV, ENCFF694LBT 169359 ENCODE Processing Pipeline 2ee20db96bdb51b29bac7e9a2d6c8d75 https://www.encodeproject.org/files/ENCFF313ZNM/@@download/ENCFF313ZNM.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF065VOT bed narrowPeak optimal idr thresholded peaks ENCSR803GYT ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-HIC1-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF186ZTM, ENCFF357GGG, ENCFF866TGY 508615 ENCODE Processing Pipeline 82b151d0e6daff158d69757dd6837a4e https://www.encodeproject.org/files/ENCFF065VOT/@@download/ENCFF065VOT.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF478KCU bed narrowPeak optimal idr thresholded peaks ENCSR096KPA ChIP-seq EFO:0005723 GM23248 cell line Homo sapiens EZH2phosphoT487-human DNA False 2018-03-04 ENCODE 1, 2 ENCFF001TDO, ENCFF253NDQ, ENCFF311GKF, ENCFF980FHO 168481 ENCODE Processing Pipeline ca933600ea2d3517a032cb0412782c3e https://www.encodeproject.org/files/ENCFF478KCU/@@download/ENCFF478KCU.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption NTR biosample, experiment not submitted to GEO insufficient read depth ENCFF757QEJ bed narrowPeak optimal idr thresholded peaks ENCSR875PEI ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens TRIM22-human DNA False 2017-11-14 ENCODE 1, 3 ENCFF001TDO, ENCFF285WPP, ENCFF469ARA, ENCFF528XEZ 515078 ENCODE Processing Pipeline e5d745a1392a7bfd777d6c9c0611a413 https://www.encodeproject.org/files/ENCFF757QEJ/@@download/ENCFF757QEJ.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity experiment not submitted to GEO ENCFF881VZH bed narrowPeak optimal idr thresholded peaks ENCSR552XSN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MLLT1-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF657OOK, ENCFF942NGM, ENCFF966NTL 755519 ENCODE Processing Pipeline 891a679537433a7e0e320f60a84f3079 https://www.encodeproject.org/files/ENCFF881VZH/@@download/ENCFF881VZH.bed.gz hg19 released file validation error, mild to moderate bottlenecking mismatched file status ENCFF846JKX bed narrowPeak optimal idr thresholded peaks ENCSR703TNG ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens 3xFLAG-RAD21-human DNA False 2016-06-28 ENCODE 1, 2 ENCFF001TDO, ENCFF374VVK, ENCFF448WRI, ENCFF466TRI 965790 ENCODE Processing Pipeline 3b292306bf576550c445db298c444e3e https://www.encodeproject.org/files/ENCFF846JKX/@@download/ENCFF846JKX.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization characterization(s) pending review ENCFF002CUS bed narrowPeak optimal idr thresholded peaks ENCSR000EEG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RAD21-human DNA see document see document False 2011-10-29 ENCODE 892862 ENCODE Consortium Analysis Working Group e96e23464661bb743565b9ce1f3bb9d0 https://www.encodeproject.org/files/ENCFF002CUS/@@download/ENCFF002CUS.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF584YYH bed narrowPeak optimal idr thresholded peaks ENCSR000EEG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RAD21-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF550URY, ENCFF741VOR, ENCFF770CIC 705911 ENCODE Processing Pipeline a82ee2006f39ecbc61fc9f369c4f5341 https://www.encodeproject.org/files/ENCFF584YYH/@@download/ENCFF584YYH.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF030HWZ bed narrowPeak optimal idr thresholded peaks ENCSR159OCC ChIP-seq EFO:0002067 K562 cell line Homo sapiens 3xFLAG-ATF1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF089SHU, ENCFF189NGD, ENCFF624BVW 67700 ENCODE Processing Pipeline 31e9c7f935021b20bb5a136f5eb5d3e0 https://www.encodeproject.org/files/ENCFF030HWZ/@@download/ENCFF030HWZ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review ENCFF043BDV bed narrowPeak optimal idr thresholded peaks ENCSR324LTM ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-OSR2-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF362URR, ENCFF624YSW, ENCFF892LCQ 629470 ENCODE Processing Pipeline 81a5c6a962e10b9a94f8f8abe6980f95 https://www.encodeproject.org/files/ENCFF043BDV/@@download/ENCFF043BDV.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF483STV bed narrowPeak optimal idr thresholded peaks ENCSR357QJR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZSCAN5A-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF424FFU, ENCFF592UUW, ENCFF618PSC 168914 ENCODE Processing Pipeline 2e3e79228026bf65cda239b427ab41a8 https://www.encodeproject.org/files/ENCFF483STV/@@download/ENCFF483STV.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF688WNG bed narrowPeak optimal idr thresholded peaks ENCSR654ORQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-SLC30A9-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF129XQZ, ENCFF366NSR, ENCFF564FVF 184995 ENCODE Processing Pipeline a3d70f04c40181c826c86973537a78f2 https://www.encodeproject.org/files/ENCFF688WNG/@@download/ENCFF688WNG.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF880SXP bed narrowPeak optimal idr thresholded peaks ENCSR278JQG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens IKZF1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF727PSQ, ENCFF835OWQ, ENCFF916ARR 47660 ENCODE Processing Pipeline 5b7572ab56cf4c0cce401f0880eb3529 https://www.encodeproject.org/files/ENCFF880SXP/@@download/ENCFF880SXP.bed.gz hg19 released borderline replicate concordance ENCFF002CJZ bed narrowPeak optimal idr thresholded peaks ENCSR000BGO ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 540314 ENCODE Consortium Analysis Working Group b6c82f6bd9f4c1331f8fbf50a9fae549 https://www.encodeproject.org/files/ENCFF002CJZ/@@download/ENCFF002CJZ.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF417LLT bed narrowPeak optimal idr thresholded peaks ENCSR000BGO ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF107ZNB, ENCFF193MSK, ENCFF874QGO 681094 ENCODE Processing Pipeline 08061d9c15cd95cc4cbd862a4cb2617b https://www.encodeproject.org/files/ENCFF417LLT/@@download/ENCFF417LLT.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF774LYA bed narrowPeak optimal idr thresholded peaks ENCSR396SKI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF331-human DNA formaldehyde False 2017-11-30 ENCODE 1, 2 ENCFF001TDO, ENCFF512ZRB, ENCFF778JLP, ENCFF935HJA 12533 ENCODE Processing Pipeline 027c1018282db0ce6004fe91343d5c15 https://www.encodeproject.org/files/ENCFF774LYA/@@download/ENCFF774LYA.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF068FYV bed narrowPeak optimal idr thresholded peaks ENCSR571PDN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-SSRP1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF281XTE, ENCFF567KLN, ENCFF888ZSX 239198 ENCODE Processing Pipeline ce2c7a88ed00459978440bfada14685f https://www.encodeproject.org/files/ENCFF068FYV/@@download/ENCFF068FYV.bed.gz hg19 released control low read depth, missing genetic modification characterization characterization(s) pending review ENCFF002DCM bed narrowPeak optimal idr thresholded peaks ENCSR000DRZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HHN, ENCFF001HHS 826017 ENCODE Consortium Analysis Working Group a8c651b28667a589dbf0c29f9e45ab01 https://www.encodeproject.org/files/ENCFF002DCM/@@download/ENCFF002DCM.bed.gz hg19 archived moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth extremely low read depth ENCFF473RXY bed narrowPeak optimal idr thresholded peaks ENCSR000DRZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF303UAB, ENCFF559IXF, ENCFF918HTJ 645089 ENCODE Processing Pipeline 9263eb7386faf2870ea728ae87b40a30 https://www.encodeproject.org/files/ENCFF473RXY/@@download/ENCFF473RXY.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth extremely low read depth ENCFF861YKK bed narrowPeak optimal idr thresholded peaks ENCSR836COE ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBM17-human DNA SDS formaldehyde False 2017-08-17 ENCODE 1, 2 ENCFF001TDO, ENCFF234WHY, ENCFF590AZG, ENCFF625VEV 995 ENCODE Processing Pipeline 3ee133fba8a90d83577284278886088e https://www.encodeproject.org/files/ENCFF861YKK/@@download/ENCFF861YKK.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF671BFH bed narrowPeak optimal idr thresholded peaks ENCSR264CZJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens THRA-human DNA False 2017-06-29 ENCODE 1, 2 ENCFF001TDO, ENCFF698FIR, ENCFF714MAA, ENCFF990DZB 34358 ENCODE Processing Pipeline c44172703df20404cda031ffc4f73a10 https://www.encodeproject.org/files/ENCFF671BFH/@@download/ENCFF671BFH.bed.gz hg19 released file validation error, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity mismatched file status ENCFF849MAQ bed narrowPeak optimal idr thresholded peaks ENCSR396SOH ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZNF792-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF097CCR, ENCFF478HJZ, ENCFF592XOZ 348114 ENCODE Processing Pipeline 39cd59f63fa3a6458cb5370e7418e573 https://www.encodeproject.org/files/ENCFF849MAQ/@@download/ENCFF849MAQ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF339GWX bed narrowPeak optimal idr thresholded peaks ENCSR242BGR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF770-human DNA formaldehyde False 2018-01-29 ENCODE 1, 2 ENCFF001TDO, ENCFF308KQO, ENCFF684ZXB, ENCFF721BRG 1046186 ENCODE Processing Pipeline df4159fc3ceb2940185f926e83912733 https://www.encodeproject.org/files/ENCFF339GWX/@@download/ENCFF339GWX.bed.gz hg19 released mild to moderate bottlenecking, low read depth, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF078VMK bed narrowPeak optimal idr thresholded peaks ENCSR586BRJ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF433-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF354WRC, ENCFF818OAI, ENCFF831KYV 66576 ENCODE Processing Pipeline 512a2d0ebce5f3651fbff974bf6a17ef https://www.encodeproject.org/files/ENCFF078VMK/@@download/ENCFF078VMK.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF231VAA bed narrowPeak optimal idr thresholded peaks ENCSR389BLX ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens GATAD2B-human DNA False 2016-10-26 ENCODE 1, 2 ENCFF001TDO, ENCFF195SFI, ENCFF697TMT, ENCFF938OWG 56375 ENCODE Processing Pipeline 88eb6873f70ac1b132216ad014effc17 https://www.encodeproject.org/files/ENCFF231VAA/@@download/ENCFF231VAA.bed.gz hg19 released ENCFF002CXL bed narrowPeak optimal idr thresholded peaks ENCSR000EGE ChIP-seq EFO:0002067 K562 cell line Homo sapiens EP300-human DNA see document see document False 2012-05-14 ENCODE 560754 ENCODE Consortium Analysis Working Group ec1717748eb321c02c89b809da728501 https://www.encodeproject.org/files/ENCFF002CXL/@@download/ENCFF002CXL.bed.gz hg19 archived low read length, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF549TYR bed narrowPeak optimal idr thresholded peaks ENCSR000EGE ChIP-seq EFO:0002067 K562 cell line Homo sapiens EP300-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF140XPK, ENCFF379CMJ, ENCFF721DKV 499007 ENCODE Processing Pipeline 5c12903e8565056220d8fa3f42c54529 https://www.encodeproject.org/files/ENCFF549TYR/@@download/ENCFF549TYR.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF890VXS bed narrowPeak optimal idr thresholded peaks ENCSR728MWW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZIC2-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF324MHP, ENCFF565YGS, ENCFF952TOJ 1140837 ENCODE Processing Pipeline 581c4a4b69788a1d9ab3fb2e6cb6ccca https://www.encodeproject.org/files/ENCFF890VXS/@@download/ENCFF890VXS.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF684MLP bed narrowPeak optimal idr thresholded peaks ENCSR130HEG ChIP-seq EFO:0002067 K562 cell line Homo sapiens COPS2-human DNA False 2016-09-26 ENCODE 1, 2 ENCFF001TDO, ENCFF285LKH, ENCFF407JTS, ENCFF549VOY 2643 ENCODE Processing Pipeline 2044df5f64a51f66c629269a417138c3 https://www.encodeproject.org/files/ENCFF684MLP/@@download/ENCFF684MLP.bed.gz hg19 released file validation error, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity mismatched file status ENCFF966MVC bed narrowPeak optimal idr thresholded peaks ENCSR412CTM ChIP-seq EFO:0002067 K562 cell line Homo sapiens SUZ12-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF009PGQ, ENCFF107SGI, ENCFF341WWD 45116 ENCODE Processing Pipeline 1567fb3dc23551e8036656e989bcb56f https://www.encodeproject.org/files/ENCFF966MVC/@@download/ENCFF966MVC.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF333UCS bed narrowPeak optimal idr thresholded peaks ENCSR240XWM ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens LEF1-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF028UBX, ENCFF072ERX, ENCFF461RDS 67533 ENCODE Processing Pipeline 9c024f81116a4662a6b618d79c6b16c0 https://www.encodeproject.org/files/ENCFF333UCS/@@download/ENCFF333UCS.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF518OUJ bed narrowPeak optimal idr thresholded peaks ENCSR591EBL ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NBN-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF231ULR, ENCFF736SWB, ENCFF934HUV 58866 ENCODE Processing Pipeline 6168710fa83a5c083f8133657ff846a4 https://www.encodeproject.org/files/ENCFF518OUJ/@@download/ENCFF518OUJ.bed.gz hg19 released file validation error mismatched file status ENCFF002DAR bed narrowPeak optimal idr thresholded peaks ENCSR000DLK ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 775431 ENCODE Consortium Analysis Working Group 94d260bfb6b2aa8ab39d8332381857b5 https://www.encodeproject.org/files/ENCFF002DAR/@@download/ENCFF002DAR.bed.gz hg19 archived low read length missing derived_from insufficient read depth control extremely low read depth ENCFF387YMM bed narrowPeak optimal idr thresholded peaks ENCSR691TXI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF610-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF091ECC, ENCFF296UIC, ENCFF663GOE 272725 ENCODE Processing Pipeline e379a8801c0c58dded340d0cc7ef1627 https://www.encodeproject.org/files/ENCFF387YMM/@@download/ENCFF387YMM.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF145PVL bed narrowPeak optimal idr thresholded peaks ENCSR441UBA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-RBAK-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF402VML, ENCFF732OEZ, ENCFF733PWG 72701 ENCODE Processing Pipeline a86a98c93f50dac8afad10fbf4def1aa https://www.encodeproject.org/files/ENCFF145PVL/@@download/ENCFF145PVL.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF267HPJ bed narrowPeak optimal idr thresholded peaks ENCSR966PJJ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-WT1-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF426WFT, ENCFF583DZG, ENCFF738DAC 508294 ENCODE Processing Pipeline 58199100dead9720f733ea53a365ecd3 https://www.encodeproject.org/files/ENCFF267HPJ/@@download/ENCFF267HPJ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF597DIY bed narrowPeak optimal idr thresholded peaks ENCSR907JPB ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZMIZ1-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF041EID, ENCFF248AZH, ENCFF469ORR 20168 ENCODE Processing Pipeline 23fbea40b5d67edb1d62e497fbf80945 https://www.encodeproject.org/files/ENCFF597DIY/@@download/ENCFF597DIY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF763AAE bed narrowPeak optimal idr thresholded peaks ENCSR522LDJ ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens HDGF-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF325LIS, ENCFF420XDI, ENCFF948KJG 62705 ENCODE Processing Pipeline ec725059665594e94aa84a79c6e18af9 https://www.encodeproject.org/files/ENCFF763AAE/@@download/ENCFF763AAE.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption ENCFF747VMG bed narrowPeak optimal idr thresholded peaks ENCSR508LMH ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ASH2L-human DNA False 2017-11-19 ENCODE 1, 2 ENCFF001TDO, ENCFF050AUQ, ENCFF893PID, ENCFF995XHS 739978 ENCODE Processing Pipeline 6a9ad188ce44eb3bf6b46e295d60e8be https://www.encodeproject.org/files/ENCFF747VMG/@@download/ENCFF747VMG.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, mixed read lengths experiment not submitted to GEO insufficient read length ENCFF298VCE bed narrowPeak optimal idr thresholded peaks ENCSR555PBN ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MAFK-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF057RCM, ENCFF215LEX, ENCFF915SCX 229725 ENCODE Processing Pipeline a49314d3746a847846deb7ec319b9564 https://www.encodeproject.org/files/ENCFF298VCE/@@download/ENCFF298VCE.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF177CIX bed narrowPeak optimal idr thresholded peaks ENCSR504VDV ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF654-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF515ZLO, ENCFF711YJV, ENCFF949JDW 573185 ENCODE Processing Pipeline 630df1dc7088ad16ccdd1f082856a0ea https://www.encodeproject.org/files/ENCFF177CIX/@@download/ENCFF177CIX.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF580NQL bed narrowPeak optimal idr thresholded peaks ENCSR468LUO ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens SIN3A-human DNA False 2016-02-16 ENCODE 1, 3 ENCFF001TDO, ENCFF458NNN, ENCFF808QLK, ENCFF975DCJ 568982 ENCODE Processing Pipeline e9cf1da96696788fbee0e9d81b21de36 https://www.encodeproject.org/files/ENCFF580NQL/@@download/ENCFF580NQL.bed.gz hg19 released ENCFF540BMV bed narrowPeak optimal idr thresholded peaks ENCSR223TAV ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-PRDM10-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF253XIY, ENCFF378ZAD, ENCFF977DEH 1150514 ENCODE Processing Pipeline 5fb165c5a668131ca48365fdd47988d9 https://www.encodeproject.org/files/ENCFF540BMV/@@download/ENCFF540BMV.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF053TBK bed narrowPeak optimal idr thresholded peaks ENCSR064LJN ChIP-seq EFO:0001086 A549 cell line Homo sapiens RFX5-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF417FAK, ENCFF678TZR, ENCFF844VMC 118243 ENCODE Processing Pipeline e22a0a18cb43373f975e5942d390db9b https://www.encodeproject.org/files/ENCFF053TBK/@@download/ENCFF053TBK.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption ENCFF556DEP bed narrowPeak optimal idr thresholded peaks ENCSR683CSF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZNF207-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF369GTZ, ENCFF459AGI, ENCFF694FNL 26931 ENCODE Processing Pipeline c521f53794c533f3c0ed06c7b4434069 https://www.encodeproject.org/files/ENCFF556DEP/@@download/ENCFF556DEP.bed.gz hg19 released antibody characterized with exemption ENCFF835YLR bed narrowPeak optimal idr thresholded peaks ENCSR005NMT ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ID3-human DNA False 2016-02-16 ENCODE 1, 2 ENCFF001TDO, ENCFF244XAR, ENCFF464FVG, ENCFF767ZAZ 376136 ENCODE Processing Pipeline f318a5df6df3b0f5af86990b56d56fe1 https://www.encodeproject.org/files/ENCFF835YLR/@@download/ENCFF835YLR.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization ENCFF019ALY bed narrowPeak optimal idr thresholded peaks ENCSR387UWP ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF113GBF, ENCFF221YZK, ENCFF873ZUQ 807730 ENCODE Processing Pipeline 6e5b27278b7140bede72c439e1f952d4 https://www.encodeproject.org/files/ENCFF019ALY/@@download/ENCFF019ALY.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF939ZFS bed narrowPeak optimal idr thresholded peaks ENCSR835TCD ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-HDAC8-human DNA False 2016-02-16 ENCODE 1, 2 ENCFF001TDO, ENCFF220RNG, ENCFF690UHD, ENCFF867FAH 151716 ENCODE Processing Pipeline a6a46e86e184939dd243d3fdf746998a https://www.encodeproject.org/files/ENCFF939ZFS/@@download/ENCFF939ZFS.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization, moderate library complexity ENCFF613RNG bed narrowPeak optimal idr thresholded peaks ENCSR851BNE ChIP-seq EFO:0002067 K562 cell line Homo sapiens MEIS2-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF327DRE, ENCFF509UMD, ENCFF697BKG 825829 ENCODE Processing Pipeline 5a8a7a2c1d04e8655631cd819f8e4127 https://www.encodeproject.org/files/ENCFF613RNG/@@download/ENCFF613RNG.bed.gz hg19 released mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody ENCFF637SBD bed narrowPeak optimal idr thresholded peaks ENCSR103GAK ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF175-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF035JZF, ENCFF126KMD, ENCFF567MYL 18038 ENCODE Processing Pipeline 666bc52045a14237131db8a8e0a1b7fc https://www.encodeproject.org/files/ENCFF637SBD/@@download/ENCFF637SBD.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF298TDL bed narrowPeak optimal idr thresholded peaks ENCSR365GRX ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZFP37-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF171XYZ, ENCFF190DZM, ENCFF616MLP 362816 ENCODE Processing Pipeline d25445c73e6bac1da453265e2c164029 https://www.encodeproject.org/files/ENCFF298TDL/@@download/ENCFF298TDL.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF405GHU bed narrowPeak optimal idr thresholded peaks ENCSR620YNB ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens KAT2B-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF666HXY, ENCFF747RWF, ENCFF793DXA 43432 ENCODE Processing Pipeline 447e24df226cb5aa1288dd5643f4af58 https://www.encodeproject.org/files/ENCFF405GHU/@@download/ENCFF405GHU.bed.gz hg19 released low read length, borderline replicate concordance, low read depth ENCFF054OUB bed narrowPeak optimal idr thresholded peaks ENCSR620YNB ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens KAT2B-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF460NDF, ENCFF571CDI, ENCFF880ZWB 39845 ENCODE Processing Pipeline 58a5a4b804a70f6c592d37cee238e479 https://www.encodeproject.org/files/ENCFF054OUB/@@download/ENCFF054OUB.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth ENCFF954NAJ bed narrowPeak optimal idr thresholded peaks ENCSR764YDL ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR0B1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF179GKP, ENCFF464TJB, ENCFF531NQP 7023 ENCODE Processing Pipeline bdc0541201594ebca82f7ad5c31c2cdc https://www.encodeproject.org/files/ENCFF954NAJ/@@download/ENCFF954NAJ.bed.gz hg19 released file validation error, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity mismatched file status, experiment not submitted to GEO partially characterized antibody ENCFF069RNV bed narrowPeak optimal idr thresholded peaks ENCSR431FOF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CHD4-human DNA False 2017-08-12 ENCODE 1, 2 ENCFF001TDO, ENCFF168UAL, ENCFF662MTH, ENCFF723TIO 272674 ENCODE Processing Pipeline d27c65d18b5a6c94ea4d020099692ea6 https://www.encodeproject.org/files/ENCFF069RNV/@@download/ENCFF069RNV.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance experiment not submitted to GEO ENCFF025ECP bed narrowPeak optimal idr thresholded peaks ENCSR462FWS ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF101-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF154HFX, ENCFF319RSR, ENCFF775HMC 221339 ENCODE Processing Pipeline 03c499e812e34aacbe36679a280a9662 https://www.encodeproject.org/files/ENCFF025ECP/@@download/ENCFF025ECP.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, missing genetic modification characterization missing control alignments ENCFF229YSW bed narrowPeak optimal idr thresholded peaks ENCSR874AFU ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IKZF1-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF455HXY, ENCFF492EAL, ENCFF795PEX 1279497 ENCODE Processing Pipeline 82175322dd3d0a9e2c11ada5394bf2a7 https://www.encodeproject.org/files/ENCFF229YSW/@@download/ENCFF229YSW.bed.gz hg19 released mild to moderate bottlenecking ENCFF895QLA bed narrowPeak optimal idr thresholded peaks ENCSR137ZMQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens REST-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF116JZW, ENCFF267RGU, ENCFF876EHZ 767264 ENCODE Processing Pipeline 566a637ff871d08a8eb27aa1153826fb https://www.encodeproject.org/files/ENCFF895QLA/@@download/ENCFF895QLA.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF950PWQ bed narrowPeak optimal idr thresholded peaks ENCSR106EBH ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF366-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF595MZR, ENCFF751ORC, ENCFF998AMF 944645 ENCODE Processing Pipeline 99548db68e2333c02eb8710b7565591a https://www.encodeproject.org/files/ENCFF950PWQ/@@download/ENCFF950PWQ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF623ALA bed narrowPeak optimal idr thresholded peaks ENCSR506HXN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TRIM22-human DNA False 2017-01-27 ENCODE 1, 2 ENCFF001TDO, ENCFF171UYN, ENCFF289OSX, ENCFF383SFZ 43005 ENCODE Processing Pipeline 4e81358d720dfe33459f0f2bd5d414c3 https://www.encodeproject.org/files/ENCFF623ALA/@@download/ENCFF623ALA.bed.gz hg19 released file validation error, borderline replicate concordance mismatched file status ENCFF783PLT bed narrowPeak optimal idr thresholded peaks ENCSR604VWJ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-KLF7-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF273RBL, ENCFF325RLP, ENCFF331QMN 238085 ENCODE Processing Pipeline 7303265a2974371b5eeb954064f4155b https://www.encodeproject.org/files/ENCFF783PLT/@@download/ENCFF783PLT.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF111DCR bed narrowPeak optimal idr thresholded peaks ENCSR811JJM ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF19-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF165YKQ, ENCFF560JUV, ENCFF598WYS 40852 ENCODE Processing Pipeline c6f7bcf5e412e442b64ab4a517fed157 https://www.encodeproject.org/files/ENCFF111DCR/@@download/ENCFF111DCR.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF300CSG bed narrowPeak optimal idr thresholded peaks ENCSR604CNJ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF416-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF073SON, ENCFF265MBT, ENCFF887FHK 32353 ENCODE Processing Pipeline 2601516fafa5439256a22d5f16719c57 https://www.encodeproject.org/files/ENCFF300CSG/@@download/ENCFF300CSG.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF563QQH bed narrowPeak optimal idr thresholded peaks ENCSR668HOP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF580-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF204QGM, ENCFF247YJV, ENCFF909BKU 460690 ENCODE Processing Pipeline 487d4966e3ad7861ef9a06db934dac50 https://www.encodeproject.org/files/ENCFF563QQH/@@download/ENCFF563QQH.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF584DZS bed narrowPeak optimal idr thresholded peaks ENCSR031ING ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KDM6A-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF019DNW, ENCFF158LYC, ENCFF340YNG 238203 ENCODE Processing Pipeline 1d78b901b51628a84babadd365d93c9c https://www.encodeproject.org/files/ENCFF584DZS/@@download/ENCFF584DZS.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF658YLW bed narrowPeak optimal idr thresholded peaks ENCSR545FXC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ATF7-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF302KGG, ENCFF556TCV, ENCFF684VZS 712827 ENCODE Processing Pipeline e36045cc8769b117f494406dc120ea94 https://www.encodeproject.org/files/ENCFF658YLW/@@download/ENCFF658YLW.bed.gz hg19 released antibody characterized with exemption ENCFF796MFI bed narrowPeak optimal idr thresholded peaks ENCSR072LQF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF76-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF422UYA, ENCFF777KBI, ENCFF974FAB 350974 ENCODE Processing Pipeline f2a7c8c2ffcfcc315ccbabbf05ef0edc https://www.encodeproject.org/files/ENCFF796MFI/@@download/ENCFF796MFI.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization missing control alignments ENCFF449EZT bed narrowPeak optimal idr thresholded peaks ENCSR978EQY ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-GLI2-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF100WYT, ENCFF634NTU, ENCFF641QDG 109226 ENCODE Processing Pipeline e577eb947b5c791b30df969f0564324b https://www.encodeproject.org/files/ENCFF449EZT/@@download/ENCFF449EZT.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization missing control alignments ENCFF065RDT bed narrowPeak optimal idr thresholded peaks ENCSR065WUF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-KLF17-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF336ENE, ENCFF653SXC, ENCFF888UCO 528735 ENCODE Processing Pipeline f8031a38c7e801267f62ca7198c1284f https://www.encodeproject.org/files/ENCFF065RDT/@@download/ENCFF065RDT.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF998YJY bed narrowPeak optimal idr thresholded peaks ENCSR563LLO ChIP-seq EFO:0002067 K562 cell line Homo sapiens E2F1-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF159RHZ, ENCFF218RJK, ENCFF710KKZ 145663 ENCODE Processing Pipeline 167456f68af8d185c73af8324361f14e https://www.encodeproject.org/files/ENCFF998YJY/@@download/ENCFF998YJY.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF415VBF bed narrowPeak optimal idr thresholded peaks ENCSR159GFL ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF518A-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF543MLG, ENCFF609GIU, ENCFF760HAB 348112 ENCODE Processing Pipeline 4ec7c0243a797e956a9d8b6cffc90c85 https://www.encodeproject.org/files/ENCFF415VBF/@@download/ENCFF415VBF.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF868WXR bed narrowPeak optimal idr thresholded peaks ENCSR624GNZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SRSF9-human DNA SDS formaldehyde False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF083ZXX, ENCFF302DUJ, ENCFF375IKN 17486 ENCODE Processing Pipeline 0d5603c909e43cb2fdfc713362a57425 https://www.encodeproject.org/files/ENCFF868WXR/@@download/ENCFF868WXR.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance sequencing runs labeled as technical replicates, experiment not submitted to GEO insufficient read depth, poor library complexity, severe bottlenecking missing control alignments ENCFF785ZQF bed narrowPeak optimal idr thresholded peaks ENCSR636EYA ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTBP1-human DNA False 2016-04-21 ENCODE 1, 2 ENCFF001TDO, ENCFF890VHF, ENCFF922CFN, ENCFF941VDL 592985 ENCODE Processing Pipeline 643de89c03671376dce833c8c354adf7 https://www.encodeproject.org/files/ENCFF785ZQF/@@download/ENCFF785ZQF.bed.gz hg19 released ENCFF259XQC bed narrowPeak optimal idr thresholded peaks ENCSR854JES ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens POLR2G-human DNA SDS formaldehyde False 2018-01-18 ENCODE 1, 2 ENCFF001TDO, ENCFF181QCC, ENCFF316BHA, ENCFF559FAT 800885 ENCODE Processing Pipeline 11427dcba68621b570fb442d68314a13 https://www.encodeproject.org/files/ENCFF259XQC/@@download/ENCFF259XQC.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO ENCFF588OLK bed narrowPeak optimal idr thresholded peaks ENCSR780BBJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZZZ3-human DNA False 2016-12-05 ENCODE 1, 2 ENCFF001TDO, ENCFF433ANO, ENCFF639RPL, ENCFF975UYT 59489 ENCODE Processing Pipeline 21ad5e41efc93bdc0af0f6d786d80664 https://www.encodeproject.org/files/ENCFF588OLK/@@download/ENCFF588OLK.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, antibody characterized with exemption ENCFF237UAN bed narrowPeak optimal idr thresholded peaks ENCSR041AXL ChIP-seq EFO:0002067 K562 cell line Homo sapiens RFX1-human DNA False 2016-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF008XTO, ENCFF811RGP, ENCFF830YCS 297362 ENCODE Processing Pipeline cf2d85601c8811ad39574a73908395c8 https://www.encodeproject.org/files/ENCFF237UAN/@@download/ENCFF237UAN.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF820HLI bed narrowPeak optimal idr thresholded peaks ENCSR977HTH ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF18-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF034UND, ENCFF366BOX, ENCFF519KHN 382240 ENCODE Processing Pipeline 7caf414b91c7748f5cf03a49b0071100 https://www.encodeproject.org/files/ENCFF820HLI/@@download/ENCFF820HLI.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF518ZXD bed narrowPeak optimal idr thresholded peaks ENCSR798IJO ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-NR2F6-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF378WYA, ENCFF614LFE, ENCFF651MYL 642388 ENCODE Processing Pipeline 0126686f382b16e6194d34e2f03fe860 https://www.encodeproject.org/files/ENCFF518ZXD/@@download/ENCFF518ZXD.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF925ANU bed narrowPeak optimal idr thresholded peaks ENCSR817QKV ChIP-seq EFO:0002067 K562 cell line Homo sapiens EP400-human DNA False 2017-06-29 ENCODE 1, 2 ENCFF001TDO, ENCFF307VFN, ENCFF311FOZ, ENCFF986DDI 620214 ENCODE Processing Pipeline a21ec613c1cc66f3735a50212f8ee1f9 https://www.encodeproject.org/files/ENCFF925ANU/@@download/ENCFF925ANU.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption ENCFF605RAD bed narrowPeak optimal idr thresholded peaks ENCSR776LDJ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF645-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF035JPP, ENCFF066DHI, ENCFF955QVX 74867 ENCODE Processing Pipeline 19fde26954b9667231bc493ff34fc0b2 https://www.encodeproject.org/files/ENCFF605RAD/@@download/ENCFF605RAD.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF908MBT bed narrowPeak optimal idr thresholded peaks ENCSR418NZA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF524-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF402FJT, ENCFF493MOX, ENCFF860OID 219189 ENCODE Processing Pipeline ee6f322404301115d9357558f6008486 https://www.encodeproject.org/files/ENCFF908MBT/@@download/ENCFF908MBT.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF966RPL bed narrowPeak optimal idr thresholded peaks ENCSR293QAR ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MTA2-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF407KWG, ENCFF494SRY, ENCFF593KRH 789765 ENCODE Processing Pipeline 44b35b24f90013b12bb762c2c84bd65c https://www.encodeproject.org/files/ENCFF966RPL/@@download/ENCFF966RPL.bed.gz hg19 released file validation error, mild to moderate bottlenecking, low read depth, moderate library complexity mismatched file status ENCFF012JXJ bed narrowPeak optimal idr thresholded peaks ENCSR636MKU ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BACH1-human DNA False 2017-01-31 ENCODE 3, 4 ENCFF001TDO, ENCFF084PVB, ENCFF747JGV, ENCFF866OLZ 440429 ENCODE Processing Pipeline 444df22c98d4fcff23ed0065c0dcd22e https://www.encodeproject.org/files/ENCFF012JXJ/@@download/ENCFF012JXJ.bed.gz hg19 released mild to moderate bottlenecking ENCFF353CQJ bed narrowPeak optimal idr thresholded peaks ENCSR966YYJ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens BMI1-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF351UKV, ENCFF429CKD, ENCFF660UZA 188092 ENCODE Processing Pipeline bcaa20932471393a0b44122cd0da6cec https://www.encodeproject.org/files/ENCFF353CQJ/@@download/ENCFF353CQJ.bed.gz hg19 released ENCFF743FZS bed narrowPeak optimal idr thresholded peaks ENCSR384LYW ChIP-seq CL:0000182 hepatocyte in vitro differentiated cells Homo sapiens EZH2-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF367LDH, ENCFF482XGS, ENCFF557NXL 211111 ENCODE Processing Pipeline 08a0432a038c13d0b4ea21714a84fb36 https://www.encodeproject.org/files/ENCFF743FZS/@@download/ENCFF743FZS.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption NTR biosample ENCFF199GND bed narrowPeak optimal idr thresholded peaks ENCSR923UTX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NONO-human DNA SDS formaldehyde False 2017-08-17 ENCODE 1, 2 ENCFF001TDO, ENCFF170DYF, ENCFF246YPT, ENCFF572LJS 362880 ENCODE Processing Pipeline ad6ac579bcd3ac2285eef43ba5157ecc https://www.encodeproject.org/files/ENCFF199GND/@@download/ENCFF199GND.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF817QHW bed narrowPeak optimal idr thresholded peaks ENCSR332EYT ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens STAT1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF073OWF, ENCFF709QKK, ENCFF921NFP 189647 ENCODE Processing Pipeline e19074d05cfeb97f1ebf25e868bd35da https://www.encodeproject.org/files/ENCFF817QHW/@@download/ENCFF817QHW.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption ENCFF557HJB bed narrowPeak optimal idr thresholded peaks ENCSR332EYT ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens STAT1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF019TKV, ENCFF294YGK, ENCFF728RVS 157764 ENCODE Processing Pipeline c32f3b3d81c77f87265210662d341469 https://www.encodeproject.org/files/ENCFF557HJB/@@download/ENCFF557HJB.bed.gz hg19 archived mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption ENCFF905HYT bed narrowPeak optimal idr thresholded peaks ENCSR807LQP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-SP2-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF049NKP, ENCFF105DON, ENCFF720ELQ 559649 ENCODE Processing Pipeline 137d83640389e81185bbea1ed26ef3ef https://www.encodeproject.org/files/ENCFF905HYT/@@download/ENCFF905HYT.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF973DWU bed narrowPeak optimal idr thresholded peaks ENCSR419ODQ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF507-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF349FSV, ENCFF537TPH, ENCFF546TCH 59119 ENCODE Processing Pipeline 42130848c2fe00fbc545781e1089a9c3 https://www.encodeproject.org/files/ENCFF973DWU/@@download/ENCFF973DWU.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking, partially characterized antibody ENCFF807AKG bed narrowPeak optimal idr thresholded peaks ENCSR841NDX ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ELF1-human DNA False 2017-06-26 ENCODE 1, 2 ENCFF001TDO, ENCFF244PNH, ENCFF359FUJ, ENCFF756XID 584709 ENCODE Processing Pipeline c254faee11bb0ce333fb9396a04593c5 https://www.encodeproject.org/files/ENCFF807AKG/@@download/ENCFF807AKG.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF643TEZ bed narrowPeak optimal idr thresholded peaks ENCSR121PFY ChIP-seq EFO:0002067 K562 cell line Homo sapiens CDC5L-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF108JTM, ENCFF361EMP, ENCFF830THH 110168 ENCODE Processing Pipeline 88bb8380a704122b98e88220e68c0d21 https://www.encodeproject.org/files/ENCFF643TEZ/@@download/ENCFF643TEZ.bed.gz hg19 released file validation error mismatched file status ENCFF930DKI bed narrowPeak optimal idr thresholded peaks ENCSR656JZL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-HHEX-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF317NTX, ENCFF778JVV, ENCFF951JQE 147187 ENCODE Processing Pipeline f9a4f8231a7185827fb5ffa320058755 https://www.encodeproject.org/files/ENCFF930DKI/@@download/ENCFF930DKI.bed.gz hg19 released control low read depth, borderline replicate concordance, missing genetic modification characterization characterization(s) pending review ENCFF009DUY bed narrowPeak optimal idr thresholded peaks ENCSR382AIB ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-DDX20-human DNA False 2016-02-16 ENCODE 1, 2 ENCFF001TDO, ENCFF316SRU, ENCFF523JZB, ENCFF667SBT 81569 ENCODE Processing Pipeline 5ec5b91ac03669cedec82fbe43737f45 https://www.encodeproject.org/files/ENCFF009DUY/@@download/ENCFF009DUY.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization ENCFF787RHQ bed narrowPeak optimal idr thresholded peaks ENCSR011XCI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF585B-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF150EKW, ENCFF551UAP, ENCFF826WVJ 141111 ENCODE Processing Pipeline 00ee1576a59dadb9b802c10fc032d407 https://www.encodeproject.org/files/ENCFF787RHQ/@@download/ENCFF787RHQ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF460JBF bed narrowPeak optimal idr thresholded peaks ENCSR679KXF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF23-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF097FQT, ENCFF139CJT, ENCFF654LZI 31671 ENCODE Processing Pipeline bde01fa34fe058dcb2fc0027ef30b242 https://www.encodeproject.org/files/ENCFF460JBF/@@download/ENCFF460JBF.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF785FBD bed narrowPeak optimal idr thresholded peaks ENCSR789GVU ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens BHLHE40-human DNA False 2016-11-18 ENCODE 1, 2 ENCFF001TDO, ENCFF207ZRW, ENCFF562GBY, ENCFF649FUD 20912 ENCODE Processing Pipeline 000680229ad85adad7aba34745d43dd7 https://www.encodeproject.org/files/ENCFF785FBD/@@download/ENCFF785FBD.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity duplicate lane review ENCFF629SHB bed narrowPeak optimal idr thresholded peaks ENCSR451CYX ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF280D-human DNA formaldehyde False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF190AMH, ENCFF617GWE, ENCFF805JPF 232706 ENCODE Processing Pipeline 8893c0a0bf71bfa980c405b60e70ebfb https://www.encodeproject.org/files/ENCFF629SHB/@@download/ENCFF629SHB.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF522JUV bed narrowPeak optimal idr thresholded peaks ENCSR848AOP ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBM22-human DNA SDS formaldehyde False 2018-01-18 ENCODE 1, 2 ENCFF001TDO, ENCFF051SGG, ENCFF072MHF, ENCFF314NQZ 223615 ENCODE Processing Pipeline 2b8bc5c99e97baca5a929efe0fafee86 https://www.encodeproject.org/files/ENCFF522JUV/@@download/ENCFF522JUV.bed.gz hg19 released low read length, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF530LSA bed narrowPeak optimal idr thresholded peaks ENCSR145CXH ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TARDBP-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF625LUF, ENCFF640MOW, ENCFF657QUD 131195 ENCODE Processing Pipeline 4a92466ac0c7aa892d275f40b241a09e https://www.encodeproject.org/files/ENCFF530LSA/@@download/ENCFF530LSA.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance experiment not submitted to GEO ENCFF583GKE bed narrowPeak optimal idr thresholded peaks ENCSR598GER ChIP-seq EFO:0002067 K562 cell line Homo sapiens CCAR2-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF470GVA, ENCFF580YZC, ENCFF655DKD 10866 ENCODE Processing Pipeline e86487c2f5bfd083078a70a39589e586 https://www.encodeproject.org/files/ENCFF583GKE/@@download/ENCFF583GKE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO missing control alignments ENCFF231DQM bed narrowPeak optimal idr thresholded peaks ENCSR481FEC ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB8A-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF241GHZ, ENCFF349HZL, ENCFF750SRP 738465 ENCODE Processing Pipeline 471c8cec16fab92afc7e4af3761f9ab9 https://www.encodeproject.org/files/ENCFF231DQM/@@download/ENCFF231DQM.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF395YRF bed narrowPeak optimal idr thresholded peaks ENCSR762DQP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF658-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF255BKX, ENCFF327AAF, ENCFF766ECI 27538 ENCODE Processing Pipeline d895e6078b8acaba4fffecba6ba975ad https://www.encodeproject.org/files/ENCFF395YRF/@@download/ENCFF395YRF.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF226PFK bed narrowPeak optimal idr thresholded peaks ENCSR773REP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB7A-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF256DXV, ENCFF440XJQ, ENCFF925BTV 194501 ENCODE Processing Pipeline 654d5d66b3158fea410274f8492afdf0 https://www.encodeproject.org/files/ENCFF226PFK/@@download/ENCFF226PFK.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF836HHL bed narrowPeak optimal idr thresholded peaks ENCSR062HDL ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens HSF1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF232NKH, ENCFF569FCI, ENCFF663REE 48324 ENCODE Processing Pipeline 8eea9b37a3808a81eaacdcb2652d7c12 https://www.encodeproject.org/files/ENCFF836HHL/@@download/ENCFF836HHL.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF688CIA bed narrowPeak optimal idr thresholded peaks ENCSR062HDL ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens HSF1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF666VFP, ENCFF668OIR, ENCFF879DVA 40206 ENCODE Processing Pipeline f32211e5a58f506e41c69c12a603bac2 https://www.encodeproject.org/files/ENCFF688CIA/@@download/ENCFF688CIA.bed.gz hg19 archived mild to moderate bottlenecking, borderline replicate concordance ENCFF284LRP bed narrowPeak optimal idr thresholded peaks ENCSR106FRG ChIP-seq EFO:0002067 K562 cell line Homo sapiens TAL1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF106RGY, ENCFF435YKY, ENCFF808YAS 490842 ENCODE Processing Pipeline 3c526cb3b4923a306e8fa5fbc8fc4dd0 https://www.encodeproject.org/files/ENCFF284LRP/@@download/ENCFF284LRP.bed.gz hg19 released mild to moderate bottlenecking ENCFF324TBP bed narrowPeak optimal idr thresholded peaks ENCSR101FJU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZNF384-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF037XHM, ENCFF147SMY, ENCFF313BLC 281422 ENCODE Processing Pipeline 5c67758efa36fc46a013b34d27c7fd43 https://www.encodeproject.org/files/ENCFF324TBP/@@download/ENCFF324TBP.bed.gz hg19 released low read length ENCFF667SBY bed narrowPeak optimal idr thresholded peaks ENCSR101FJU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZNF384-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF350PSE, ENCFF351HRN, ENCFF483GPY 263815 ENCODE Processing Pipeline 79ac1ad8128698f02ddbb9d19d94e24a https://www.encodeproject.org/files/ENCFF667SBY/@@download/ENCFF667SBY.bed.gz hg19 archived low read length ENCFF698MLW bed narrowPeak optimal idr thresholded peaks ENCSR334HSW ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF318-human DNA False 2016-09-27 ENCODE 1, 2 ENCFF001TDO, ENCFF071TPY, ENCFF688JRI, ENCFF854NST 36732 ENCODE Processing Pipeline feaff44cd5137aa6ef07a5d4c399875b https://www.encodeproject.org/files/ENCFF698MLW/@@download/ENCFF698MLW.bed.gz hg19 released file validation error, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity mismatched file status ENCFF795QZU bed narrowPeak optimal idr thresholded peaks ENCSR841YWU ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens E4F1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF329QXP, ENCFF636VMF, ENCFF995GUT 66521 ENCODE Processing Pipeline 6f363b188c51b1846c21a87ed1df5d8f https://www.encodeproject.org/files/ENCFF795QZU/@@download/ENCFF795QZU.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF374BNP bed narrowPeak optimal idr thresholded peaks ENCSR785YRL ChIP-seq CL:0000775 neutrophil primary cell Homo sapiens CTCF-human DNA False 2016-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF070WIW, ENCFF536TDH, ENCFF736LBL 454345 ENCODE Processing Pipeline 683ef5fc6a8f9999e64a515baa290711 https://www.encodeproject.org/files/ENCFF374BNP/@@download/ENCFF374BNP.bed.gz hg19 released antibody characterized with exemption NTR biosample ENCFF175IIE bed narrowPeak optimal idr thresholded peaks ENCSR970NKQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR2F1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF035WWJ, ENCFF224GWU, ENCFF359OAZ 603194 ENCODE Processing Pipeline adbe9db9e3821e3e5d266adc496d2cf0 https://www.encodeproject.org/files/ENCFF175IIE/@@download/ENCFF175IIE.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF911BYP bed narrowPeak optimal idr thresholded peaks ENCSR177VFS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MEF2B-human DNA False 2018-02-13 ENCODE 1, 2 ENCFF001TDO, ENCFF252PIK, ENCFF934HHY, ENCFF952CNK 737439 ENCODE Processing Pipeline 307e9ca674be889ee21a25aefce3e3d2 https://www.encodeproject.org/files/ENCFF911BYP/@@download/ENCFF911BYP.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking, partially characterized antibody ENCFF808UCP bed narrowPeak optimal idr thresholded peaks ENCSR793USK ChIP-seq EFO:0002847 PC-9 cell line Homo sapiens EZH2-human DNA False 2017-11-13 ENCODE 1, 2 ENCFF001TDO, ENCFF258LFF, ENCFF656XHS, ENCFF819BDT 56008 ENCODE Processing Pipeline 4d3ef79bacb47f74d1904f3c34d3db11 https://www.encodeproject.org/files/ENCFF808UCP/@@download/ENCFF808UCP.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption experiment not submitted to GEO ENCFF195GMS bed narrowPeak optimal idr thresholded peaks ENCSR397DQC ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-KLF16-human DNA formaldehyde False 2017-04-05 ENCODE 1, 2 ENCFF001TDO, ENCFF578JBZ, ENCFF664TWV, ENCFF993WOW 329776 ENCODE Processing Pipeline 7fa2c987862785e3f13c74e1e8f4bdac https://www.encodeproject.org/files/ENCFF195GMS/@@download/ENCFF195GMS.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF502KHR bed narrowPeak optimal idr thresholded peaks ENCSR638QHV ChIP-seq EFO:0002067 K562 cell line Homo sapiens ELF4-human DNA False 2017-01-31 ENCODE 1, 2 ENCFF001TDO, ENCFF307JUJ, ENCFF625PVR, ENCFF734SUP 329872 ENCODE Processing Pipeline c2e187f6d861df3100e2acf5d12e3e45 https://www.encodeproject.org/files/ENCFF502KHR/@@download/ENCFF502KHR.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption ENCFF785ACI bed narrowPeak optimal idr thresholded peaks ENCSR220YXI ChIP-seq EFO:0002067 K562 cell line Homo sapiens PRPF4-human DNA SDS formaldehyde False 2017-03-07 ENCODE 1, 2 ENCFF001TDO, ENCFF310EMX, ENCFF692UVD, ENCFF894WLR 119841 ENCODE Processing Pipeline ad820677d3eca6a165b3fe883114c783 https://www.encodeproject.org/files/ENCFF785ACI/@@download/ENCFF785ACI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO insufficient read depth, poor library complexity, severe bottlenecking ENCFF812MZB bed narrowPeak optimal idr thresholded peaks ENCSR234VCE ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens DPF2-human DNA False 2016-04-22 ENCODE 1, 2 ENCFF001TDO, ENCFF193LNB, ENCFF546YTN, ENCFF557POD 401448 ENCODE Processing Pipeline 49e790bfe0c4b66b44837cc08eccf03d https://www.encodeproject.org/files/ENCFF812MZB/@@download/ENCFF812MZB.bed.gz hg19 released ENCFF314KRZ bed narrowPeak optimal idr thresholded peaks ENCSR176EXN ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens JUN-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF344TGN, ENCFF595WOT, ENCFF960PAB 119623 ENCODE Processing Pipeline 6792d61b88b8800d7d60aa74859ea231 https://www.encodeproject.org/files/ENCFF314KRZ/@@download/ENCFF314KRZ.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption ENCFF836SJY bed narrowPeak optimal idr thresholded peaks ENCSR176EXN ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens JUN-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF077UUI, ENCFF219RVG, ENCFF946SUD 99715 ENCODE Processing Pipeline e58f10d97806b7dab03e0705e0213540 https://www.encodeproject.org/files/ENCFF836SJY/@@download/ENCFF836SJY.bed.gz hg19 archived mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption ENCFF004WYV bed narrowPeak optimal idr thresholded peaks ENCSR211LTF ChIP-seq EFO:0002067 K562 cell line Homo sapiens EGR1-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF343JJX, ENCFF634YJK, ENCFF920IJY 557721 ENCODE Processing Pipeline f1a92ff86172ca7ec73d6ddfff66ecc4 https://www.encodeproject.org/files/ENCFF004WYV/@@download/ENCFF004WYV.bed.gz hg19 released low read depth ENCFF987VNY bed narrowPeak optimal idr thresholded peaks ENCSR138FUZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens RNF2-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF032IBC, ENCFF230YWY, ENCFF617ITM 90032 ENCODE Processing Pipeline f36811713a2ca68357a6462a9526b2a4 https://www.encodeproject.org/files/ENCFF987VNY/@@download/ENCFF987VNY.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance ENCFF485MXM bed narrowPeak optimal idr thresholded peaks ENCSR138FUZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens RNF2-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF533MTU, ENCFF558QUM, ENCFF905VIC 76440 ENCODE Processing Pipeline cfb6a3095d48e09ffa9b902b0cdc7fa7 https://www.encodeproject.org/files/ENCFF485MXM/@@download/ENCFF485MXM.bed.gz hg19 archived low read length, mild to moderate bottlenecking, borderline replicate concordance ENCFF418DRY bed narrowPeak optimal idr thresholded peaks ENCSR294JWV ChIP-seq EFO:0001086 A549 cell line Homo sapiens ZFP36-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF548GLK, ENCFF589LXR, ENCFF848NAZ 207120 ENCODE Processing Pipeline 4e93c7b4d77e37b74325e30f059ada18 https://www.encodeproject.org/files/ENCFF418DRY/@@download/ENCFF418DRY.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF388YOB bed narrowPeak optimal idr thresholded peaks ENCSR462QZZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF395-human DNA False 2017-12-04 ENCODE 1, 3 ENCFF001TDO, ENCFF671LDD, ENCFF801APL, ENCFF925XFR 471909 ENCODE Processing Pipeline fda08e2b7c3812bda36632c9d20dec23 https://www.encodeproject.org/files/ENCFF388YOB/@@download/ENCFF388YOB.bed.gz hg19 released control low read depth, missing genetic modification characterization experiment not submitted to GEO ENCFF048JWL bed narrowPeak optimal idr thresholded peaks ENCSR934NHU ChIP-seq CL:0002319 neural cell in vitro differentiated cells Homo sapiens MXI1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF291JHS, ENCFF768FVV, ENCFF958NNA 549464 ENCODE Processing Pipeline b823de521ef5907f68bb2f6df358a678 https://www.encodeproject.org/files/ENCFF048JWL/@@download/ENCFF048JWL.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF193MKL bed narrowPeak optimal idr thresholded peaks ENCSR729LGA ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens SP1-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF096VAL, ENCFF546ASI, ENCFF852HEY 54123 ENCODE Processing Pipeline cd90f0a39db101f4a65917b0ac20bf94 https://www.encodeproject.org/files/ENCFF193MKL/@@download/ENCFF193MKL.bed.gz hg19 released ENCFF809PXE bed narrowPeak optimal idr thresholded peaks ENCSR469WII ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BMI1-human DNA False 2016-11-18 ENCODE 1, 2 ENCFF001TDO, ENCFF089KCX, ENCFF159QMJ, ENCFF827JSS 261069 ENCODE Processing Pipeline 571eea3e172f1eee41776e6ff5fbad01 https://www.encodeproject.org/files/ENCFF809PXE/@@download/ENCFF809PXE.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF189TVG bed narrowPeak optimal idr thresholded peaks ENCSR345YWJ ChIP-seq UBERON:0002107 liver tissue Homo sapiens ZBTB33-human DNA False 2016-09-23 ENCODE 1, 2 ENCFF001TDO, ENCFF426TDF, ENCFF719LYG, ENCFF873YWK 90623 ENCODE Processing Pipeline 9dea3ec7f9807e5c95f5d056631de6be https://www.encodeproject.org/files/ENCFF189TVG/@@download/ENCFF189TVG.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF756LUP bed narrowPeak optimal idr thresholded peaks ENCSR345YWJ ChIP-seq UBERON:0002107 liver tissue Homo sapiens ZBTB33-human DNA False 2016-09-23 ENCODE 1, 2 ENCFF001TDO, ENCFF774TWW, ENCFF862YTD, ENCFF868FGE 77158 ENCODE Processing Pipeline 3d75c04365d91d1c459024b405544aae https://www.encodeproject.org/files/ENCFF756LUP/@@download/ENCFF756LUP.bed.gz hg19 archived borderline replicate concordance, low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF507RHE bed narrowPeak optimal idr thresholded peaks ENCSR928API ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RFX1-human DNA False 2017-11-14 ENCODE 2, 3 ENCFF001TDO, ENCFF458YFL, ENCFF523TOV, ENCFF905UQM 117007 ENCODE Processing Pipeline 645691ce6019368a11effa03e652dbb9 https://www.encodeproject.org/files/ENCFF507RHE/@@download/ENCFF507RHE.bed.gz hg19 released experiment not submitted to GEO ENCFF947IJX bed narrowPeak optimal idr thresholded peaks ENCSR611JJS ChIP-seq EFO:0002106 A673 cell line Homo sapiens CTCF-human DNA False 2017-11-13 ENCODE 1, 2 ENCFF001TDO, ENCFF317YVO, ENCFF455ZJN, ENCFF799ZCH 1016359 ENCODE Processing Pipeline 33ffb92f35aa7e03fa914fe0ba386406 https://www.encodeproject.org/files/ENCFF947IJX/@@download/ENCFF947IJX.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption, mixed read lengths NTR biosample, experiment not submitted to GEO ENCFF482SMS bed narrowPeak optimal idr thresholded peaks ENCSR211PZO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-GLI4-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF227SFY, ENCFF369FSD, ENCFF801SBR 129838 ENCODE Processing Pipeline 870f0f8fe6938234d770dd4484ff8edc https://www.encodeproject.org/files/ENCFF482SMS/@@download/ENCFF482SMS.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF308CQD bed narrowPeak optimal idr thresholded peaks ENCSR767XSF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF555-human DNA formaldehyde False 2017-03-16 ENCODE 1, 2 ENCFF001TDO, ENCFF068KEX, ENCFF334YYA, ENCFF851VOU 122493 ENCODE Processing Pipeline c31fe4efb08f3e2ca3ffdbbc0827db23 https://www.encodeproject.org/files/ENCFF308CQD/@@download/ENCFF308CQD.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization, inconsistent platforms missing control alignments ENCFF814CZI bed narrowPeak optimal idr thresholded peaks ENCSR330EXS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RBBP5-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF728BVI, ENCFF893XGS, ENCFF982HET 31983 ENCODE Processing Pipeline 7f6c46172d37388e3b8ae753494e6392 https://www.encodeproject.org/files/ENCFF814CZI/@@download/ENCFF814CZI.bed.gz hg19 released ENCFF827MDC bed narrowPeak optimal idr thresholded peaks ENCSR277OOQ ChIP-seq EFO:0001086 A549 cell line Homo sapiens ZC3H11A-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF087DBS, ENCFF088LGL, ENCFF279PWU 140359 ENCODE Processing Pipeline ace047c77db01927a4f200d44940abe0 https://www.encodeproject.org/files/ENCFF827MDC/@@download/ENCFF827MDC.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF292GRY bed narrowPeak optimal idr thresholded peaks ENCSR770PQN ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-BCL11B-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF051ZGH, ENCFF697WQI, ENCFF775DQT 232399 ENCODE Processing Pipeline 2d6ca0eeae1f8122b6349ecfdde61084 https://www.encodeproject.org/files/ENCFF292GRY/@@download/ENCFF292GRY.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF968KBN bed narrowPeak optimal idr thresholded peaks ENCSR869IUD ChIP-seq EFO:0002067 K562 cell line Homo sapiens ATF2-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF513RYS, ENCFF759MWN, ENCFF826QEY 723708 ENCODE Processing Pipeline 4aad24f6ab0ecc423ff32a4a1989e087 https://www.encodeproject.org/files/ENCFF968KBN/@@download/ENCFF968KBN.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF943LDC bed narrowPeak optimal idr thresholded peaks ENCSR028EGI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF26-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF018BNH, ENCFF316KPE, ENCFF363JWT 52773 ENCODE Processing Pipeline 09186c80f53290b88a7a49a20eb0fa3e https://www.encodeproject.org/files/ENCFF943LDC/@@download/ENCFF943LDC.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF246HIM bed narrowPeak optimal idr thresholded peaks ENCSR198ZYJ ChIP-seq CL:0002319 neural cell in vitro differentiated cells Homo sapiens RAD21-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF406ZDS, ENCFF567WYM, ENCFF830CSU 831522 ENCODE Processing Pipeline 7be299ee1f00b328b82605fa5e21fa6b https://www.encodeproject.org/files/ENCFF246HIM/@@download/ENCFF246HIM.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption ENCFF497IKJ bed narrowPeak optimal idr thresholded peaks ENCSR714LZQ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF664-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF121EDV, ENCFF299XML, ENCFF946NYL 490521 ENCODE Processing Pipeline 19df4637fa18fb4cadad0dc5a8d66d59 https://www.encodeproject.org/files/ENCFF497IKJ/@@download/ENCFF497IKJ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF809YFY bed narrowPeak optimal idr thresholded peaks ENCSR819LHG ChIP-seq EFO:0002067 K562 cell line Homo sapiens FOXA1-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF113ZZY, ENCFF837QWL, ENCFF996FCB 26422 ENCODE Processing Pipeline 853ae621eda61d33788aa4e3acaa8aba https://www.encodeproject.org/files/ENCFF809YFY/@@download/ENCFF809YFY.bed.gz hg19 released mild to moderate bottlenecking ENCFF338HQY bed narrowPeak optimal idr thresholded peaks ENCSR446LAV ChIP-seq EFO:0002067 K562 cell line Homo sapiens DDX20-human DNA False 2016-04-22 ENCODE 1, 2 ENCFF001TDO, ENCFF355OVA, ENCFF390GHC, ENCFF903NXY 158966 ENCODE Processing Pipeline 7a457cf032688b56edd701ad2d8a0330 https://www.encodeproject.org/files/ENCFF338HQY/@@download/ENCFF338HQY.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF099NBE bed narrowPeak optimal idr thresholded peaks ENCSR125DKL ChIP-seq EFO:0002357 SU-DHL-6 cell line Homo sapiens CTCF-human DNA see document see document False 2017-11-29 ENCODE 1, 2 ENCFF001TDO, ENCFF206YWO, ENCFF708ZIZ, ENCFF967NOV 1308100 ENCODE Processing Pipeline a0c9fc2538edaf3c7e6d716df6894959 https://www.encodeproject.org/files/ENCFF099NBE/@@download/ENCFF099NBE.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, antibody characterized with exemption NTR biosample, experiment not submitted to GEO insufficient read depth, poor library complexity, severe bottlenecking ENCFF134HPR bed narrowPeak optimal idr thresholded peaks ENCSR211GNP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZSCAN4-human DNA formaldehyde False 2017-02-21 ENCODE 1, 2 ENCFF001TDO, ENCFF147KIZ, ENCFF452AVX, ENCFF601FPT 473833 ENCODE Processing Pipeline 0ea3218c0f208b82b06b37f1883d4e0e https://www.encodeproject.org/files/ENCFF134HPR/@@download/ENCFF134HPR.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF880BTU bed narrowPeak optimal idr thresholded peaks ENCSR872ZHM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens KDM5A-human DNA False 2018-03-05 ENCODE 1, 2 ENCFF001TDO, ENCFF077UDW, ENCFF480OLQ, ENCFF661ZVZ 286764 ENCODE Processing Pipeline 4afe059a7155dc6fadc302a1f266a711 https://www.encodeproject.org/files/ENCFF880BTU/@@download/ENCFF880BTU.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption experiment not submitted to GEO ENCFF824SRC bed narrowPeak optimal idr thresholded peaks ENCSR093HXE ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF16-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF243GQS, ENCFF543MRW, ENCFF815UHN 53995 ENCODE Processing Pipeline 5bcf80ee6cae0c1843d6c295b2e476d8 https://www.encodeproject.org/files/ENCFF824SRC/@@download/ENCFF824SRC.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF675HMV bed narrowPeak optimal idr thresholded peaks ENCSR019WUS ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF10-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF151HMH, ENCFF865RNJ, ENCFF911OWN 349818 ENCODE Processing Pipeline f6590711d92391583ff6c9a8421d97bc https://www.encodeproject.org/files/ENCFF675HMV/@@download/ENCFF675HMV.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF426RRZ bed narrowPeak optimal idr thresholded peaks ENCSR547TGL ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF701-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF167KNP, ENCFF232YYY, ENCFF570TDQ 41634 ENCODE Processing Pipeline f88cabcbacc7e006a62ee16dc3d0f1ac https://www.encodeproject.org/files/ENCFF426RRZ/@@download/ENCFF426RRZ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF943KIE bed narrowPeak optimal idr thresholded peaks ENCSR381VYR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZFP69B-human DNA formaldehyde False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF308IOS, ENCFF828JWB, ENCFF900QTS 449398 ENCODE Processing Pipeline 2899d96cf639315fd98660cd47de89df https://www.encodeproject.org/files/ENCFF943KIE/@@download/ENCFF943KIE.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF341HWZ bed narrowPeak optimal idr thresholded peaks ENCSR408JQO ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IRF3-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF294PGV, ENCFF527ONY, ENCFF942POQ 94616 ENCODE Processing Pipeline c59b54537720fe013b61c273bcdb7db5 https://www.encodeproject.org/files/ENCFF341HWZ/@@download/ENCFF341HWZ.bed.gz hg19 released mild to moderate bottlenecking ENCFF976ZVG bed narrowPeak optimal idr thresholded peaks ENCSR408JQO ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IRF3-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF035PSF, ENCFF706IKA, ENCFF789FWH 74711 ENCODE Processing Pipeline b9ca3746a271c526d07bb436aa4d07b7 https://www.encodeproject.org/files/ENCFF976ZVG/@@download/ENCFF976ZVG.bed.gz hg19 archived mild to moderate bottlenecking ENCFF573DRR bed narrowPeak optimal idr thresholded peaks ENCSR414TYY ChIP-seq EFO:0002067 K562 cell line Homo sapiens RUNX1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF083XOF, ENCFF246CBF, ENCFF401PPU 100617 ENCODE Processing Pipeline 5fd41070314178340b7f951075c763b4 https://www.encodeproject.org/files/ENCFF573DRR/@@download/ENCFF573DRR.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF804ABO bed narrowPeak optimal idr thresholded peaks ENCSR414TYY ChIP-seq EFO:0002067 K562 cell line Homo sapiens RUNX1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF436PYK, ENCFF766PWX, ENCFF826RWZ 82785 ENCODE Processing Pipeline 148481b2344282d1938e29f26cd718b8 https://www.encodeproject.org/files/ENCFF804ABO/@@download/ENCFF804ABO.bed.gz hg19 archived mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF002CTF bed narrowPeak optimal idr thresholded peaks ENCSR000ECQ ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens SUPT20H-human DNA see document see document False 2011-10-29 ENCODE 93635 ENCODE Consortium Analysis Working Group e749fee4dcd60de57f9a63605a6d5cc3 https://www.encodeproject.org/files/ENCFF002CTF/@@download/ENCFF002CTF.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing derived_from, biological replicates with identical biosample ENCFF612ASR bed narrowPeak optimal idr thresholded peaks ENCSR000ECQ ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens SUPT20H-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF010UIT, ENCFF045IZP, ENCFF513SAI 1592 ENCODE Processing Pipeline 3ef5cf31627cfec40dcf07a18cd7122d https://www.encodeproject.org/files/ENCFF612ASR/@@download/ENCFF612ASR.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth biological replicates with identical biosample ENCFF699VTO bed narrowPeak optimal idr thresholded peaks ENCSR219NRT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens GTF2F1-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF138YIB, ENCFF155XFE, ENCFF489KKG 43926 ENCODE Processing Pipeline 9a41d61d15754115a3ad3a8dcc0af86c https://www.encodeproject.org/files/ENCFF699VTO/@@download/ENCFF699VTO.bed.gz hg19 archived low read length, low read depth ENCFF694UJI bed narrowPeak optimal idr thresholded peaks ENCSR219NRT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens GTF2F1-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF266NSN, ENCFF401ZKP, ENCFF808UFI 48543 ENCODE Processing Pipeline 8c61a3021ba1648497bcc6c7e1a1d4d7 https://www.encodeproject.org/files/ENCFF694UJI/@@download/ENCFF694UJI.bed.gz hg19 released low read length, low read depth ENCFF613LYW bed narrowPeak optimal idr thresholded peaks ENCSR115BLD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens KDM1A-human DNA False 2017-08-12 ENCODE 1, 2 ENCFF001TDO, ENCFF566XPO, ENCFF758VXC, ENCFF949QLM 878411 ENCODE Processing Pipeline 2518fc77293383b885ca5e85d886d5d4 https://www.encodeproject.org/files/ENCFF613LYW/@@download/ENCFF613LYW.bed.gz hg19 released low read length, mild to moderate bottlenecking ENCFF044XMF bed narrowPeak optimal idr thresholded peaks ENCSR639GWS ChIP-seq EFO:0001086 A549 cell line Homo sapiens KDM1A-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF302BCZ, ENCFF541ESI, ENCFF592JBH 128421 ENCODE Processing Pipeline 69dee47719bd2cc50c9e2db4012f0984 https://www.encodeproject.org/files/ENCFF044XMF/@@download/ENCFF044XMF.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth ENCFF675RNJ bed narrowPeak optimal idr thresholded peaks ENCSR004PLU ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB10-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF590SBA, ENCFF902KSI, ENCFF995FFV 335288 ENCODE Processing Pipeline c2a2e726f0bb6dc386b3eb3a2798a217 https://www.encodeproject.org/files/ENCFF675RNJ/@@download/ENCFF675RNJ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF289BUU bed narrowPeak optimal idr thresholded peaks ENCSR574XEO ChIP-seq EFO:0002067 K562 cell line Homo sapiens NUFIP1-human DNA False 2018-01-31 ENCODE 1, 2 ENCFF001TDO, ENCFF349MUN, ENCFF466JSP, ENCFF629MDH 69389 ENCODE Processing Pipeline 3cac01fc9589a4464ae550b9ca599261 https://www.encodeproject.org/files/ENCFF289BUU/@@download/ENCFF289BUU.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF463ZWH bed narrowPeak optimal idr thresholded peaks ENCSR265WJC ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens eGFP-KLF4-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF070OJG, ENCFF751FQC, ENCFF897LGZ 146809 ENCODE Processing Pipeline c6199365c3ba00a74b337eedaff244ce https://www.encodeproject.org/files/ENCFF463ZWH/@@download/ENCFF463ZWH.bed.gz hg19 released missing genetic modification characterization ENCFF921HJY bed narrowPeak optimal idr thresholded peaks ENCSR781EQJ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB48-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF107UOL, ENCFF420BNC, ENCFF828MTJ 537584 ENCODE Processing Pipeline c806b7431115d3fdeca96e23ad3e7551 https://www.encodeproject.org/files/ENCFF921HJY/@@download/ENCFF921HJY.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF002CMQ bed narrowPeak optimal idr thresholded peaks ENCSR000BRR ChIP-seq EFO:0002067 K562 cell line Homo sapiens STAT5A-human DNA see document see document False 2012-02-29 ENCODE 221518 ENCODE Consortium Analysis Working Group 3e5196912f2efefafdfbb24469bf2423 https://www.encodeproject.org/files/ENCFF002CMQ/@@download/ENCFF002CMQ.bed.gz hg19 archived low read length, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF696KPD bed narrowPeak optimal idr thresholded peaks ENCSR000BRR ChIP-seq EFO:0002067 K562 cell line Homo sapiens STAT5A-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF373WLW, ENCFF556KAN, ENCFF562UJV 241687 ENCODE Processing Pipeline c7fe8f342e3192db1d65922e864f8c7e https://www.encodeproject.org/files/ENCFF696KPD/@@download/ENCFF696KPD.bed.gz hg19 released low read length, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample ENCFF471ZTZ bed narrowPeak optimal idr thresholded peaks ENCSR613NUC ChIP-seq EFO:0002067 K562 cell line Homo sapiens ARNT-human DNA False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF505URD, ENCFF829KFC, ENCFF848FSH 309156 ENCODE Processing Pipeline 720a3ea4fe1bb47e81c212a2969a67f6 https://www.encodeproject.org/files/ENCFF471ZTZ/@@download/ENCFF471ZTZ.bed.gz hg19 released ENCFF662IOC bed narrowPeak optimal idr thresholded peaks ENCSR430YRJ ChIP-seq EFO:0005694 KMS-11 cell line Homo sapiens CTCF-human DNA False 2017-11-13 ENCODE 1, 2 ENCFF001TDO, ENCFF578FSD, ENCFF595GMF, ENCFF850KMN 889131 ENCODE Processing Pipeline 88ccf4f9fadb93f1bcfff9069c661557 https://www.encodeproject.org/files/ENCFF662IOC/@@download/ENCFF662IOC.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption, mixed read lengths NTR biosample, experiment not submitted to GEO ENCFF002COS bed narrowPeak optimal idr thresholded peaks ENCSR000DZQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EBF1-human DNA see document see document False 2011-10-29 ENCODE 787819 ENCODE Consortium Analysis Working Group 708f29d8a17c765e32e16b09c85c7017 https://www.encodeproject.org/files/ENCFF002COS/@@download/ENCFF002COS.bed.gz hg19 archived low read length, low read depth missing derived_from, biological replicates with identical biosample control insufficient read depth ENCFF868VSY bed narrowPeak optimal idr thresholded peaks ENCSR000DZQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EBF1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF097DVZ, ENCFF248VST, ENCFF583XLS 673345 ENCODE Processing Pipeline f0b989cb4493c1a9afb342953149b247 https://www.encodeproject.org/files/ENCFF868VSY/@@download/ENCFF868VSY.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample control insufficient read depth ENCFF421PBO bed narrowPeak optimal idr thresholded peaks ENCSR084RDK ChIP-seq EFO:0002167 DOHH2 cell line Homo sapiens CTCF-human DNA see document see document False 2014-07-11 ENCODE 1, 2 ENCFF001TDO, ENCFF268CZL, ENCFF459CAS, ENCFF824YYD 1053984 ENCODE Processing Pipeline d43f7f5ed061c81af73fc2007fc4995e https://www.encodeproject.org/files/ENCFF421PBO/@@download/ENCFF421PBO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption NTR biosample poor library complexity, severe bottlenecking ENCFF975IRM bed narrowPeak optimal idr thresholded peaks ENCSR670JDQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens RB1-human DNA False 2017-03-16 ENCODE 3, 4 ENCFF001TDO, ENCFF197MJO, ENCFF634SVO, ENCFF801LNJ 469880 ENCODE Processing Pipeline 36677304d38b5f80815daf0f71286681 https://www.encodeproject.org/files/ENCFF975IRM/@@download/ENCFF975IRM.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF942FBW bed narrowPeak optimal idr thresholded peaks ENCSR957KYB ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens BHLHE40-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF088IEB, ENCFF619TUA, ENCFF940YUU 463177 ENCODE Processing Pipeline e4cca3a1db075fe4246889df1b37db5f https://www.encodeproject.org/files/ENCFF942FBW/@@download/ENCFF942FBW.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth duplicate lane review ENCFF002CWY bed narrowPeak optimal idr thresholded peaks ENCSR000EGT ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour IRF1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF000YRV, ENCFF000YRW 281340 ENCODE Consortium Analysis Working Group 1fe51e31a98f953e464df554d510bbd2 https://www.encodeproject.org/files/ENCFF002CWY/@@download/ENCFF002CWY.bed.gz hg19 archived control low read depth, low read length, low read depth, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF284VUQ bed narrowPeak optimal idr thresholded peaks ENCSR000EGT ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour IRF1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF074NOU, ENCFF456MUP, ENCFF998DOG 247503 ENCODE Processing Pipeline c4f00a8ce99ea04dbc4ba77382440ed9 https://www.encodeproject.org/files/ENCFF284VUQ/@@download/ENCFF284VUQ.bed.gz hg19 released control low read depth, low read length, low read depth, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF738WCE bed narrowPeak optimal idr thresholded peaks ENCSR908CMW ChIP-seq EFO:0002067 K562 cell line Homo sapiens KDM1A-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF770MXX, ENCFF797FYJ, ENCFF799KLQ 836134 ENCODE Processing Pipeline f68cd3bad39ffbc3f6ceba8dd9405852 https://www.encodeproject.org/files/ENCFF738WCE/@@download/ENCFF738WCE.bed.gz hg19 released file validation error, mild to moderate bottlenecking mismatched file status ENCFF248AOD bed narrowPeak optimal idr thresholded peaks ENCSR194IJN ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF766-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF040CEH, ENCFF205LAU, ENCFF908JEV 405344 ENCODE Processing Pipeline 2b29bf3d96987a1477ec6855a06b7040 https://www.encodeproject.org/files/ENCFF248AOD/@@download/ENCFF248AOD.bed.gz hg19 released missing genetic modification characterization ENCFF002CLA bed narrowPeak optimal idr thresholded peaks ENCSR000BGL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SIN3A-human DNA see document see document False 2011-07-18 ENCODE 394744 ENCODE Consortium Analysis Working Group f6dc806d724b85aa7551d084e3dc160b https://www.encodeproject.org/files/ENCFF002CLA/@@download/ENCFF002CLA.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, borderline replicate concordance missing derived_from, biological replicates with identical biosample ENCFF786HHN bed narrowPeak optimal idr thresholded peaks ENCSR000BGL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SIN3A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF569NZY, ENCFF906RFI, ENCFF948QTU 400997 ENCODE Processing Pipeline 7db723d04c4e48121eda5729cde709e7 https://www.encodeproject.org/files/ENCFF786HHN/@@download/ENCFF786HHN.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, borderline replicate concordance biological replicates with identical biosample ENCFF856LJI bed narrowPeak optimal idr thresholded peaks ENCSR076KZW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF280C-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF065GKH, ENCFF149KQE, ENCFF915CHI 25011 ENCODE Processing Pipeline 230cf7f8d6432a55c282d40c89340675 https://www.encodeproject.org/files/ENCFF856LJI/@@download/ENCFF856LJI.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF753EBJ bed narrowPeak optimal idr thresholded peaks ENCSR217QCK ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF697-human DNA formaldehyde False 2016-10-07 ENCODE 2, 3 ENCFF001TDO, ENCFF078NCC, ENCFF224QXN, ENCFF299LMQ 137054 ENCODE Processing Pipeline 94fd9b120d1db7ed4aa7307de329e4ca https://www.encodeproject.org/files/ENCFF753EBJ/@@download/ENCFF753EBJ.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF506LCO bed narrowPeak optimal idr thresholded peaks ENCSR777YSB ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF781-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF146KHO, ENCFF471VMQ, ENCFF489FNP 141384 ENCODE Processing Pipeline 5f1952184920680f81d31c875d493703 https://www.encodeproject.org/files/ENCFF506LCO/@@download/ENCFF506LCO.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF284PKK bed narrowPeak optimal idr thresholded peaks ENCSR497VFH ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF639-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF204SBR, ENCFF207WQF, ENCFF225XFM 164358 ENCODE Processing Pipeline b9c899f383de2ba7d6944157dbe28386 https://www.encodeproject.org/files/ENCFF284PKK/@@download/ENCFF284PKK.bed.gz hg19 released file validation error, borderline replicate concordance, low read depth mismatched file status, experiment not submitted to GEO partially characterized antibody ENCFF996IVU bed narrowPeak optimal idr thresholded peaks ENCSR033NQK ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF830-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF184LWN, ENCFF544LRY, ENCFF626FHE 67192 ENCODE Processing Pipeline 858a6d4a0594e5207d07a18e71bbcf9e https://www.encodeproject.org/files/ENCFF996IVU/@@download/ENCFF996IVU.bed.gz hg19 released file validation error, mild to moderate bottlenecking, moderate library complexity mismatched file status, experiment not submitted to GEO partially characterized antibody ENCFF823SYE bed narrowPeak optimal idr thresholded peaks ENCSR715CCR ChIP-seq EFO:0002067 K562 cell line Homo sapiens DPF2-human DNA False 2016-04-22 ENCODE 1, 2 ENCFF001TDO, ENCFF023VOJ, ENCFF577FLU, ENCFF994IZJ 812173 ENCODE Processing Pipeline 59b72560947ff818b0d51aac88596a9b https://www.encodeproject.org/files/ENCFF823SYE/@@download/ENCFF823SYE.bed.gz hg19 released ENCFF297BXM bed narrowPeak optimal idr thresholded peaks ENCSR488EES ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NFE2L2-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF126HBJ, ENCFF144BHZ, ENCFF596MOA 170579 ENCODE Processing Pipeline bee2941bec91c7c87a5e2348f00cbff5 https://www.encodeproject.org/files/ENCFF297BXM/@@download/ENCFF297BXM.bed.gz hg19 released low read length ENCFF928POR bed narrowPeak optimal idr thresholded peaks ENCSR488EES ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NFE2L2-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF128XNM, ENCFF555MVU, ENCFF774CXV 156347 ENCODE Processing Pipeline 11db2a9f2b96341e423d0f808874e03c https://www.encodeproject.org/files/ENCFF928POR/@@download/ENCFF928POR.bed.gz hg19 archived low read length ENCFF257RYT bed narrowPeak optimal idr thresholded peaks ENCSR647ZXA ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-MEF2D-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF170VIW, ENCFF345KFF, ENCFF369MAB 270622 ENCODE Processing Pipeline 7e3090a199e6b19be857acc869c561a1 https://www.encodeproject.org/files/ENCFF257RYT/@@download/ENCFF257RYT.bed.gz hg19 released file validation error, low read depth, missing genetic modification characterization mismatched file status ENCFF357WYN bed narrowPeak optimal idr thresholded peaks ENCSR189YYK ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZBTB40-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF297SZY, ENCFF321DBH, ENCFF742SNU 335989 ENCODE Processing Pipeline 2daa2dcb35564976ae966e9a8f326dce https://www.encodeproject.org/files/ENCFF357WYN/@@download/ENCFF357WYN.bed.gz hg19 released file validation error, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity mismatched file status ENCFF906IMT bed narrowPeak optimal idr thresholded peaks ENCSR382XLA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZFP36-human DNA False 2018-01-26 ENCODE 2, 3 ENCFF001TDO, ENCFF722ERB, ENCFF806XIE, ENCFF844TSM 61616 ENCODE Processing Pipeline 9b285ff6f7a58bdc0f47d6bbb2e49475 https://www.encodeproject.org/files/ENCFF906IMT/@@download/ENCFF906IMT.bed.gz hg19 released low read length, borderline replicate concordance, low read depth experiment not submitted to GEO partially characterized antibody ENCFF878YVM bed narrowPeak optimal idr thresholded peaks ENCSR513MGG ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF302-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF025IJB, ENCFF457SMH, ENCFF849JLW 33994 ENCODE Processing Pipeline 1a4b7762d41aaa8846b5693ec8883478 https://www.encodeproject.org/files/ENCFF878YVM/@@download/ENCFF878YVM.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization missing control alignments ENCFF125YHG bed narrowPeak optimal idr thresholded peaks ENCSR481YWD ChIP-seq EFO:0001086 A549 cell line Homo sapiens SMC3-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF371DJF, ENCFF787LTE, ENCFF953EDE 351597 ENCODE Processing Pipeline 912d123a1abc3ca45eb6c1e41fea7608 https://www.encodeproject.org/files/ENCFF125YHG/@@download/ENCFF125YHG.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF296EBH bed narrowPeak optimal idr thresholded peaks ENCSR011CKE ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF2-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF182GSY, ENCFF345FXA, ENCFF367OHF 504921 ENCODE Processing Pipeline 12bb66f76b1f8107de1a6028109a3726 https://www.encodeproject.org/files/ENCFF296EBH/@@download/ENCFF296EBH.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF057XEP bed narrowPeak optimal idr thresholded peaks ENCSR146NLL ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-REPIN1-human DNA formaldehyde False 2017-03-07 ENCODE 1, 3 ENCFF001TDO, ENCFF157PJB, ENCFF283IXO, ENCFF583MYK 116326 ENCODE Processing Pipeline 91f928cf8be768b6e5c9b510846ab878 https://www.encodeproject.org/files/ENCFF057XEP/@@download/ENCFF057XEP.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF461SHI bed narrowPeak optimal idr thresholded peaks ENCSR731AGO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZSCAN5C-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF320PPT, ENCFF497JEN, ENCFF720HMJ 360373 ENCODE Processing Pipeline 109d72de4afc5ffa89056c5d884a0d82 https://www.encodeproject.org/files/ENCFF461SHI/@@download/ENCFF461SHI.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF172VGB bed narrowPeak optimal idr thresholded peaks ENCSR513XQX ChIP-seq EFO:0001086 A549 cell line Homo sapiens SIN3A-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF051GOZ, ENCFF440YTM, ENCFF894UDN 677643 ENCODE Processing Pipeline 7358218c36b7f14a0aa7cba4a0388186 https://www.encodeproject.org/files/ENCFF172VGB/@@download/ENCFF172VGB.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF797CTT bed narrowPeak optimal idr thresholded peaks ENCSR513XQX ChIP-seq EFO:0001086 A549 cell line Homo sapiens SIN3A-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF278AGF, ENCFF545DEV, ENCFF910IBQ 605463 ENCODE Processing Pipeline 46ec547ab531232fa4f25e7db6c1e6b7 https://www.encodeproject.org/files/ENCFF797CTT/@@download/ENCFF797CTT.bed.gz hg19 archived mild to moderate bottlenecking, antibody characterized with exemption ENCFF058NMZ bed narrowPeak optimal idr thresholded peaks ENCSR991ELG ChIP-seq EFO:0002067 K562 cell line Homo sapiens SP1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF422VXS, ENCFF459WKK, ENCFF699WES 223612 ENCODE Processing Pipeline 573eb94247a08300f7c022e4b16aeff5 https://www.encodeproject.org/files/ENCFF058NMZ/@@download/ENCFF058NMZ.bed.gz hg19 archived mild to moderate bottlenecking, low read depth ENCFF300XUA bed narrowPeak optimal idr thresholded peaks ENCSR991ELG ChIP-seq EFO:0002067 K562 cell line Homo sapiens SP1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF103ESU, ENCFF269OJD, ENCFF778OYJ 267916 ENCODE Processing Pipeline 375188392fd2e30179eec9249863ee49 https://www.encodeproject.org/files/ENCFF300XUA/@@download/ENCFF300XUA.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF977PXD bed narrowPeak optimal idr thresholded peaks ENCSR714LYA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-PRDM2-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF436FCZ, ENCFF620TKQ, ENCFF800JIO 73422 ENCODE Processing Pipeline f9ed97225ea3be221b35a484ac09e7c6 https://www.encodeproject.org/files/ENCFF977PXD/@@download/ENCFF977PXD.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF399GAE bed narrowPeak optimal idr thresholded peaks ENCSR038RGL ChIP-seq EFO:0002067 K562 cell line Homo sapiens MCM7-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF010VLV, ENCFF191CDX, ENCFF286BGV 48865 ENCODE Processing Pipeline b4f54e4c49a4190a7b2f6cf67ec4bb84 https://www.encodeproject.org/files/ENCFF399GAE/@@download/ENCFF399GAE.bed.gz hg19 released file validation error, low read depth, antibody characterized with exemption mismatched file status ENCFF002CWX bed narrowPeak optimal idr thresholded peaks ENCSR000EGK ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute IRF1-human DNA see document see document False 2012-05-14 ENCODE 265788 ENCODE Consortium Analysis Working Group 24eba98c3ea79e788b5dc044958e6784 https://www.encodeproject.org/files/ENCFF002CWX/@@download/ENCFF002CWX.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample, missing derived_from control insufficient read depth ENCFF908UIY bed narrowPeak optimal idr thresholded peaks ENCSR000EGK ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute IRF1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF370WUU, ENCFF390PTY, ENCFF846FXF 245198 ENCODE Processing Pipeline ec29245560e4baf22e4e5e93fac1d297 https://www.encodeproject.org/files/ENCFF908UIY/@@download/ENCFF908UIY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample control insufficient read depth ENCFF572YVL bed narrowPeak optimal idr thresholded peaks ENCSR017CEO ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CUX1-human DNA False 2016-06-14 ENCODE 2, 3 ENCFF001TDO, ENCFF411WAC, ENCFF508BAI, ENCFF876DVV 310550 ENCODE Processing Pipeline f198a4bd13b4f6eea757257bd24eb6e7 https://www.encodeproject.org/files/ENCFF572YVL/@@download/ENCFF572YVL.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF446PZF bed narrowPeak optimal idr thresholded peaks ENCSR194BBY ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF221-human DNA formaldehyde False 2017-11-28 ENCODE 1, 2 ENCFF001TDO, ENCFF422YAW, ENCFF947QYH, ENCFF969RHP 36059 ENCODE Processing Pipeline 7b332b58c9ed3dce6dc77d7dcb51fafb https://www.encodeproject.org/files/ENCFF446PZF/@@download/ENCFF446PZF.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF416GRM bed narrowPeak optimal idr thresholded peaks ENCSR321MSF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB21-human DNA formaldehyde False 2017-03-07 ENCODE 4, 5 ENCFF001TDO, ENCFF062EXE, ENCFF435TXR, ENCFF656FNF 362721 ENCODE Processing Pipeline f8a0b1d27769a812d6291c4e962dc061 https://www.encodeproject.org/files/ENCFF416GRM/@@download/ENCFF416GRM.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF187XKX bed narrowPeak optimal idr thresholded peaks ENCSR210MET ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF391-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF218HTW, ENCFF588MXL, ENCFF656GQP 267269 ENCODE Processing Pipeline e7b01256b97788a567ad6b394f3604f4 https://www.encodeproject.org/files/ENCFF187XKX/@@download/ENCFF187XKX.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization missing control alignments ENCFF839UTQ bed narrowPeak optimal idr thresholded peaks ENCSR775HFF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF791-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF164NNM, ENCFF447PFL, ENCFF921ESK 74697 ENCODE Processing Pipeline 3cc816bf0b74ede29cb467d912f1d58a https://www.encodeproject.org/files/ENCFF839UTQ/@@download/ENCFF839UTQ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF002CVC bed narrowPeak optimal idr thresholded peaks ENCSR000EFA ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens JUN-human DNA see document see document False 2011-10-29 ENCODE 682671 ENCODE Consortium Analysis Working Group 633e29aea0b8daae7a7633161281b118 https://www.encodeproject.org/files/ENCFF002CVC/@@download/ENCFF002CVC.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF072ZEU bed narrowPeak optimal idr thresholded peaks ENCSR125NBL ChIP-seq NTR:0000711 neural progenitor cell in vitro differentiated cells Homo sapiens CTCF-human DNA False 2017-10-19 ENCODE 1, 2 ENCFF001TDO, ENCFF230HEO, ENCFF888EDU, ENCFF983BJS 1051859 ENCODE Processing Pipeline 1aeb7830409a87e0443bd93fbd773235 https://www.encodeproject.org/files/ENCFF072ZEU/@@download/ENCFF072ZEU.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF905EBM bed narrowPeak optimal idr thresholded peaks ENCSR703KWN ChIP-seq EFO:0005724 MM.1S cell line Homo sapiens EZH2-human DNA False 2017-12-14 ENCODE 1, 2 ENCFF001TDO, ENCFF138QJZ, ENCFF355WZV, ENCFF725JDK 27025 ENCODE Processing Pipeline 6f8fb897b7d3c2a99b4b4753454bc67f https://www.encodeproject.org/files/ENCFF905EBM/@@download/ENCFF905EBM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption, mixed read lengths experiment not submitted to GEO ENCFF911RQN bed narrowPeak optimal idr thresholded peaks ENCSR753GIA ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens TARDBP-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF278ZIL, ENCFF397APL, ENCFF614ENJ 60947 ENCODE Processing Pipeline 057cbd7bec7f84d0b6e7978a79558d2e https://www.encodeproject.org/files/ENCFF911RQN/@@download/ENCFF911RQN.bed.gz hg19 released ENCFF002CNN bed narrowPeak optimal idr thresholded peaks ENCSR000BQF ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens TAF1-human DNA see document see document False 2012-02-29 ENCODE 312512 ENCODE Consortium Analysis Working Group f7d783668cd94e5bdfcd189e4507f1ac https://www.encodeproject.org/files/ENCFF002CNN/@@download/ENCFF002CNN.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF883EGI bed narrowPeak optimal idr thresholded peaks ENCSR000BQF ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens TAF1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF363MZC, ENCFF534OBN, ENCFF893LMP 296975 ENCODE Processing Pipeline a0c63d69cf64140819bd535ff869d781 https://www.encodeproject.org/files/ENCFF883EGI/@@download/ENCFF883EGI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample ENCFF442ZUF bed narrowPeak optimal idr thresholded peaks ENCSR200JYP ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF316-human DNA False 2017-02-03 ENCODE 1, 2 ENCFF001TDO, ENCFF488HLT, ENCFF802QKE, ENCFF885FEE 351602 ENCODE Processing Pipeline 1fc04f16ea66c9af37a0b919f6ec5ebc https://www.encodeproject.org/files/ENCFF442ZUF/@@download/ENCFF442ZUF.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms, moderate library complexity ENCFF965AIZ bed narrowPeak optimal idr thresholded peaks ENCSR569XNP ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens FOS-human DNA False 2016-12-19 ENCODE 1, 3 ENCFF001TDO, ENCFF124QJZ, ENCFF540SXF, ENCFF834BCC 1138063 ENCODE Processing Pipeline 23514fe2f2689d4cb62e6fe4fc279273 https://www.encodeproject.org/files/ENCFF965AIZ/@@download/ENCFF965AIZ.bed.gz hg19 released duplicate lane review ENCFF582SHF bed narrowPeak optimal idr thresholded peaks ENCSR404BPV ChIP-seq CL:0002319 neural cell in vitro differentiated cells Homo sapiens SMC3-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF040TAT, ENCFF067FOD, ENCFF975MKK 902257 ENCODE Processing Pipeline 1913e84f8d444712f5c7cb57f2ee697a https://www.encodeproject.org/files/ENCFF582SHF/@@download/ENCFF582SHF.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption experiment not submitted to GEO poor library complexity ENCFF088WYS bed narrowPeak optimal idr thresholded peaks ENCSR000BSA ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens JUND-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF215YYW, ENCFF383XWW, ENCFF772HIT 429111 ENCODE Processing Pipeline 552adbf4f3cb71bf7ca90692e963e8df https://www.encodeproject.org/files/ENCFF088WYS/@@download/ENCFF088WYS.bed.gz hg19 released low read depth biological replicates with identical biosample missing control alignments ENCFF545VNY bed narrowPeak optimal idr thresholded peaks ENCSR000FCE ChIP-seq EFO:0002067 K562 cell line Homo sapiens ETV6-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF235BMG, ENCFF539MNA, ENCFF915TWO 122108 ENCODE Processing Pipeline a29ad50d06ead7823ea05e7b4a848633 https://www.encodeproject.org/files/ENCFF545VNY/@@download/ENCFF545VNY.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF660VPM bed narrowPeak optimal idr thresholded peaks ENCSR124BJR ChIP-seq EFO:0002067 K562 cell line Homo sapiens ETV6-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF315GZR, ENCFF558BWS, ENCFF611XPF 48570 ENCODE Processing Pipeline 627872c6c63dc5283d8687e9efa8fe7b https://www.encodeproject.org/files/ENCFF660VPM/@@download/ENCFF660VPM.bed.gz hg19 released low read length, borderline replicate concordance, low read depth ENCFF675TLS bed narrowPeak optimal idr thresholded peaks ENCSR267DFA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXA1-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF400BJI, ENCFF432MIZ, ENCFF549YDX 167811 ENCODE Processing Pipeline 34278c629fe0428ac2f4c6dfa275bc15 https://www.encodeproject.org/files/ENCFF675TLS/@@download/ENCFF675TLS.bed.gz hg19 released ENCFF278ODX bed narrowPeak optimal idr thresholded peaks ENCSR279IEM ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens SIX4-human DNA False 2016-10-11 ENCODE 1, 2 ENCFF001TDO, ENCFF118LCE, ENCFF824KUU, ENCFF988JBW 59006 ENCODE Processing Pipeline d80417dac83b096bac414a968ce1a745 https://www.encodeproject.org/files/ENCFF278ODX/@@download/ENCFF278ODX.bed.gz hg19 released file validation error, borderline replicate concordance mismatched file status ENCFF941ZLF bed narrowPeak optimal idr thresholded peaks ENCSR783QUL ChIP-seq EFO:0007112 Loucy cell line Homo sapiens EZH2phosphoT487-human DNA False 2018-02-06 ENCODE 1, 2 ENCFF001TDO, ENCFF107IVH, ENCFF262SHR, ENCFF407UZQ 21974 ENCODE Processing Pipeline 8ab509e27ba0756df3d37fedaf0bc99d https://www.encodeproject.org/files/ENCFF941ZLF/@@download/ENCFF941ZLF.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF692PVV bed narrowPeak optimal idr thresholded peaks ENCSR239ZLZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-FOSL1-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF877UDE, ENCFF907RDS, ENCFF912QBK 923866 ENCODE Processing Pipeline 04a0cb049ff73ba89ee706b1951ff137 https://www.encodeproject.org/files/ENCFF692PVV/@@download/ENCFF692PVV.bed.gz hg19 released missing genetic modification characterization ENCFF254YOX bed narrowPeak optimal idr thresholded peaks ENCSR750LYM ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-NR2C2-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF374WLL, ENCFF610XAF, ENCFF994BAN 707639 ENCODE Processing Pipeline f34791c66a2d02e2f42717a679cb9573 https://www.encodeproject.org/files/ENCFF254YOX/@@download/ENCFF254YOX.bed.gz hg19 released missing genetic modification characterization ENCFF499OUD bed narrowPeak optimal idr thresholded peaks ENCSR000BRF ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour JUND-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF154EAD, ENCFF740MCA, ENCFF804HAX 358511 ENCODE Processing Pipeline 7009bdfb16748b7dc7f7f7d5c9b2d1ec https://www.encodeproject.org/files/ENCFF499OUD/@@download/ENCFF499OUD.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF901BGG bed narrowPeak optimal idr thresholded peaks ENCSR673WZL ChIP-seq EFO:0002071 LNCAP cell line Homo sapiens 17β-hydroxy-5α-androstan-3-one 10 nM 4 hour CTCF-human DNA False 2017-06-29 ENCODE 1, 2 ENCFF001TDO, ENCFF265NZD, ENCFF499RVM, ENCFF696QFR 771337 ENCODE Processing Pipeline 7c52b039f0a5e21db97ef3f12a4d997b https://www.encodeproject.org/files/ENCFF901BGG/@@download/ENCFF901BGG.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF116DIO bed narrowPeak optimal idr thresholded peaks ENCSR018MSO ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF148-human DNA False 2017-12-01 ENCODE 3, 4 ENCFF001TDO, ENCFF297GYL, ENCFF890QZH, ENCFF985CUX 412739 ENCODE Processing Pipeline 1373edacc8e8c659850e64d69646692f https://www.encodeproject.org/files/ENCFF116DIO/@@download/ENCFF116DIO.bed.gz hg19 released missing genetic modification characterization experiment not submitted to GEO ENCFF602AXP bed narrowPeak optimal idr thresholded peaks ENCSR603XLW ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF589-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF470XSK, ENCFF524YHM, ENCFF783GCE 328275 ENCODE Processing Pipeline ad7eca2f92009aa774a2f0e1cc3ca6df https://www.encodeproject.org/files/ENCFF602AXP/@@download/ENCFF602AXP.bed.gz hg19 released control low read depth, low read depth, missing genetic modification characterization ENCFF002CSG bed narrowPeak optimal idr thresholded peaks ENCSR000EVJ ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens E2F1-human DNA see document see document False 2011-10-29 ENCODE 129469 ENCODE Consortium Analysis Working Group ef923581e8e46df0f60fbaf91c75ca6e https://www.encodeproject.org/files/ENCFF002CSG/@@download/ENCFF002CSG.bed.gz hg19 released inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CGV bed narrowPeak optimal idr thresholded peaks ENCSR000BGU ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EBF1-human DNA see document see document False 2011-07-18 ENCODE 709523 ENCODE Consortium Analysis Working Group 5f6fc43a9cd69bd28ade083a5de1345c https://www.encodeproject.org/files/ENCFF002CGV/@@download/ENCFF002CGV.bed.gz hg19 archived low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF394DLH bed narrowPeak optimal idr thresholded peaks ENCSR000BGU ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EBF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF113PGY, ENCFF541IHJ, ENCFF920WQE 687507 ENCODE Processing Pipeline 665d97b52ab2270bef1179c705616a9b https://www.encodeproject.org/files/ENCFF394DLH/@@download/ENCFF394DLH.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF581YKY bed narrowPeak optimal idr thresholded peaks ENCSR986CDX ChIP-seq EFO:0002067 K562 cell line Homo sapiens NEUROD1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF314SAN, ENCFF334IIE, ENCFF973JKQ 252531 ENCODE Processing Pipeline de1c71d16bed9d96dcff38981ba5dd30 https://www.encodeproject.org/files/ENCFF581YKY/@@download/ENCFF581YKY.bed.gz hg19 released low read length, borderline replicate concordance, low read depth experiment not submitted to GEO partially characterized antibody ENCFF640LEB bed narrowPeak optimal idr thresholded peaks ENCSR297MUV ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens EZH2phosphoT487-human DNA False 2017-01-15 ENCODE 1, 2 ENCFF001TDO, ENCFF139FDW, ENCFF252AKV, ENCFF978OGV 35158 ENCODE Processing Pipeline bd8c5e4680bcbbd808ba239c174fd1a6 https://www.encodeproject.org/files/ENCFF640LEB/@@download/ENCFF640LEB.bed.gz hg19 released borderline replicate concordance, moderate library complexity, mild to moderate bottlenecking, mixed run types, low read depth, antibody characterized with exemption NTR biosample ENCFF474AYD bed narrowPeak optimal idr thresholded peaks ENCSR940MHE ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MBD2-human DNA False 2016-08-10 ENCODE 1, 2 ENCFF001TDO, ENCFF055PQZ, ENCFF550XLN, ENCFF663NEE 173942 ENCODE Processing Pipeline fdf7e1b69b888cb6b0a2bf175391d18b https://www.encodeproject.org/files/ENCFF474AYD/@@download/ENCFF474AYD.bed.gz hg19 released borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF241GZK bed narrowPeak optimal idr thresholded peaks ENCSR637QAM ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TRIM22-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF048WFQ, ENCFF087YWI, ENCFF314KVP 458199 ENCODE Processing Pipeline bff9cb67e81f6eb1381e15b178bfc91a https://www.encodeproject.org/files/ENCFF241GZK/@@download/ENCFF241GZK.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF735XQT bed narrowPeak optimal idr thresholded peaks ENCSR637QAM ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TRIM22-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF776OJT, ENCFF779SCE, ENCFF829ZUO 374394 ENCODE Processing Pipeline eddaf519deab6f458ba3799769f43a01 https://www.encodeproject.org/files/ENCFF735XQT/@@download/ENCFF735XQT.bed.gz hg19 archived mild to moderate bottlenecking, moderate library complexity ENCFF760IFZ bed narrowPeak optimal idr thresholded peaks ENCSR626VUC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ETV6-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF021LAP, ENCFF283QCO, ENCFF305DNA 370617 ENCODE Processing Pipeline fc6b1747ced34ffb5b0c695b5120610d https://www.encodeproject.org/files/ENCFF760IFZ/@@download/ENCFF760IFZ.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption mismatched file status ENCFF692GBM bed narrowPeak optimal idr thresholded peaks ENCSR626VUC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ETV6-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF162BDU, ENCFF496IEH, ENCFF777XYO 337339 ENCODE Processing Pipeline 1acc555b446c6ccf848d0b6257a65ad6 https://www.encodeproject.org/files/ENCFF692GBM/@@download/ENCFF692GBM.bed.gz hg19 archived borderline replicate concordance, antibody characterized with exemption mismatched file status ENCFF583CIY bed narrowPeak optimal idr thresholded peaks ENCSR494UQJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR3C1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF269CZZ, ENCFF923WYM, ENCFF939VKQ 73618 ENCODE Processing Pipeline fab8230df4fac667f59e49a65da4daab https://www.encodeproject.org/files/ENCFF583CIY/@@download/ENCFF583CIY.bed.gz hg19 released borderline replicate concordance, low read depth experiment not submitted to GEO partially characterized antibody ENCFF002CII bed narrowPeak optimal idr thresholded peaks ENCSR000BII ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens POU2F2-human DNA see document see document False 2011-07-18 ENCODE 294121 ENCODE Consortium Analysis Working Group c7733269eacdd09fffc31f76aa356fdb https://www.encodeproject.org/files/ENCFF002CII/@@download/ENCFF002CII.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF809HPK bed narrowPeak optimal idr thresholded peaks ENCSR000BII ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens POU2F2-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF454FOO, ENCFF804FYW, ENCFF827WWU 365917 ENCODE Processing Pipeline b7a9062d6c2fb53b926482a3e1634e70 https://www.encodeproject.org/files/ENCFF809HPK/@@download/ENCFF809HPK.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF988IOQ bed narrowPeak optimal idr thresholded peaks ENCSR000DMF ChIP-seq EFO:0005726 LNCaP clone FGC cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF195CRO, ENCFF337SGV, ENCFF867DDR 835569 ENCODE Processing Pipeline 229b8bc3f4c57961455ee29ab67d5f55 https://www.encodeproject.org/files/ENCFF988IOQ/@@download/ENCFF988IOQ.bed.gz hg19 released mild to moderate bottlenecking biological replicates with identical biosample control insufficient read depth, insufficient read depth ENCFF147MAN bed narrowPeak optimal idr thresholded peaks ENCSR444LIN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TCF7-human DNA False 2016-08-10 ENCODE 1, 2 ENCFF001TDO, ENCFF237AGN, ENCFF412SBF, ENCFF575WAL 334161 ENCODE Processing Pipeline 10b950f75ae36b7a32659dcdfc3bd99b https://www.encodeproject.org/files/ENCFF147MAN/@@download/ENCFF147MAN.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF428XZH bed narrowPeak optimal idr thresholded peaks ENCSR444LIN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TCF7-human DNA False 2016-08-10 ENCODE 1, 2 ENCFF001TDO, ENCFF048TGI, ENCFF137OKC, ENCFF457RQE 294047 ENCODE Processing Pipeline e491a3131d2ab3ff3d4fb2e3cb009822 https://www.encodeproject.org/files/ENCFF428XZH/@@download/ENCFF428XZH.bed.gz hg19 archived low read depth, antibody characterized with exemption ENCFF150STV bed narrowPeak optimal idr thresholded peaks ENCSR000BIO ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF326RDQ, ENCFF734DHL, ENCFF978KSK 11618 ENCODE Processing Pipeline 2505f610e615fcc77e60f7bbc8ef9d14 https://www.encodeproject.org/files/ENCFF150STV/@@download/ENCFF150STV.bed.gz hg19 released control low read depth, low read length, low read depth biological replicates with identical biosample ENCFF967IKR bed narrowPeak optimal idr thresholded peaks ENCSR711SNW ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOA1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF109EWV, ENCFF171LJW, ENCFF970QSE 26738 ENCODE Processing Pipeline 599e70697c9787a7d8c4551e5e62263b https://www.encodeproject.org/files/ENCFF967IKR/@@download/ENCFF967IKR.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF421KIV bed narrowPeak optimal idr thresholded peaks ENCSR431XGJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens PYGO2-human DNA False 2018-01-26 ENCODE 2, 3 ENCFF001TDO, ENCFF078LXS, ENCFF087NBH, ENCFF268LPT 66575 ENCODE Processing Pipeline 0da245067c2c9c95999d81f57436fdd0 https://www.encodeproject.org/files/ENCFF421KIV/@@download/ENCFF421KIV.bed.gz hg19 released borderline replicate concordance, low read depth experiment not submitted to GEO partially characterized antibody ENCFF827ZLB bed narrowPeak optimal idr thresholded peaks ENCSR974OFJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens KLF5-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF219UCA, ENCFF630UZO, ENCFF782MKD 257031 ENCODE Processing Pipeline 8522928cab6ad14973b5bb00ec993f01 https://www.encodeproject.org/files/ENCFF827ZLB/@@download/ENCFF827ZLB.bed.gz hg19 released mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody ENCFF615FIR bed narrowPeak optimal idr thresholded peaks ENCSR028NUR ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF592-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF096FDT, ENCFF134UIM, ENCFF185LGF 16924 ENCODE Processing Pipeline 87ab6ffc70c2d9d03c2b87caf8e4673b https://www.encodeproject.org/files/ENCFF615FIR/@@download/ENCFF615FIR.bed.gz hg19 released borderline replicate concordance, low read depth ENCFF002CJJ bed narrowPeak optimal idr thresholded peaks ENCSR000BIQ ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SIX5-human DNA see document see document False 2011-07-18 ENCODE 74149 ENCODE Consortium Analysis Working Group bcd6754c04414593085c871e04823a05 https://www.encodeproject.org/files/ENCFF002CJJ/@@download/ENCFF002CJJ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample missing control alignments ENCFF318SDF bed narrowPeak optimal idr thresholded peaks ENCSR000BIQ ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SIX5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF493YRO, ENCFF883CRS, ENCFF946SYP 56542 ENCODE Processing Pipeline a99c9330c815a30deec33b4d13251ca2 https://www.encodeproject.org/files/ENCFF318SDF/@@download/ENCFF318SDF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample missing control alignments ENCFF315YAF bed narrowPeak optimal idr thresholded peaks ENCSR038DJJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMAD1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF067UPX, ENCFF328DUA, ENCFF567MRG 163107 ENCODE Processing Pipeline 00df6f6748c20e2ecc98bc3d078b2bd2 https://www.encodeproject.org/files/ENCFF315YAF/@@download/ENCFF315YAF.bed.gz hg19 released low read length, low read depth experiment not submitted to GEO partially characterized antibody ENCFF002CGY bed narrowPeak optimal idr thresholded peaks ENCSR000BKA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ETS1-human DNA see document see document False 2011-07-18 ENCODE 82458 ENCODE Consortium Analysis Working Group 4d8a69baf039742337c0db70c72aad8a https://www.encodeproject.org/files/ENCFF002CGY/@@download/ENCFF002CGY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF332PGQ bed narrowPeak optimal idr thresholded peaks ENCSR000BKA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ETS1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF075PCI, ENCFF570ZKC, ENCFF883DUG 223403 ENCODE Processing Pipeline e5bebc61c5e4cd79bae1c050a283c860 https://www.encodeproject.org/files/ENCFF332PGQ/@@download/ENCFF332PGQ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample ENCFF002CIP bed narrowPeak optimal idr thresholded peaks ENCSR000BIB ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 210664 ENCODE Consortium Analysis Working Group c5eac5902cb7db64edab571c0e42a3b1 https://www.encodeproject.org/files/ENCFF002CIP/@@download/ENCFF002CIP.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample, missing derived_from ENCFF713IVN bed narrowPeak optimal idr thresholded peaks ENCSR000BIB ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF365FTH, ENCFF452NTV, ENCFF556WPW 210518 ENCODE Processing Pipeline 69d8b7fd6e1831171aa71f7a143393a4 https://www.encodeproject.org/files/ENCFF713IVN/@@download/ENCFF713IVN.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample ENCFF123WEZ bed narrowPeak optimal idr thresholded peaks ENCSR207PFI ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZBED1-human DNA False 2016-02-05 ENCODE 1, 2 ENCFF001TDO, ENCFF196ECC, ENCFF493ZGH, ENCFF846TRX 217520 ENCODE Processing Pipeline 6c56ef3935736be7731a0100ba97731f https://www.encodeproject.org/files/ENCFF123WEZ/@@download/ENCFF123WEZ.bed.gz hg19 released borderline replicate concordance ENCFF002CKL bed narrowPeak optimal idr thresholded peaks ENCSR000BJK ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens GABPA-human DNA see document see document False 2011-07-18 ENCODE 208155 ENCODE Consortium Analysis Working Group b71d28c42d7022e7d52efc24a27e5ce7 https://www.encodeproject.org/files/ENCFF002CKL/@@download/ENCFF002CKL.bed.gz hg19 archived low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF065EPE bed narrowPeak optimal idr thresholded peaks ENCSR000BJK ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens GABPA-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF348PXE, ENCFF451PTD, ENCFF539SWX 145608 ENCODE Processing Pipeline fb8bebc60129799408d9866b62709e23 https://www.encodeproject.org/files/ENCFF065EPE/@@download/ENCFF065EPE.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF208AFB bed narrowPeak optimal idr thresholded peaks ENCSR000EDO ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CEBPZ-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF038ZOH, ENCFF884XPS, ENCFF929SGA 9470 ENCODE Processing Pipeline d920db9d39dce27b60ab03fd7bb65dad https://www.encodeproject.org/files/ENCFF208AFB/@@download/ENCFF208AFB.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CJU bed narrowPeak optimal idr thresholded peaks ENCSR000BML ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 591744 ENCODE Consortium Analysis Working Group a43279815d0173f798277e643247cfaa https://www.encodeproject.org/files/ENCFF002CJU/@@download/ENCFF002CJU.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF617QEN bed narrowPeak optimal idr thresholded peaks ENCSR000BML ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF039LAR, ENCFF178TUV, ENCFF580JQM 723136 ENCODE Processing Pipeline 8834aef0c99b7b03604db5c1a08ed75c https://www.encodeproject.org/files/ENCFF617QEN/@@download/ENCFF617QEN.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF470MLY bed narrowPeak optimal idr thresholded peaks ENCSR221GAN ChIP-seq EFO:0002067 K562 cell line Homo sapiens MBD2-human DNA False 2016-06-28 ENCODE 1, 3 ENCFF001TDO, ENCFF649MHK, ENCFF935RWY, ENCFF939VGO 263596 ENCODE Processing Pipeline 4deea444df0f55717f0b9f7d26c0db9b https://www.encodeproject.org/files/ENCFF470MLY/@@download/ENCFF470MLY.bed.gz hg19 released low read depth ENCFF061UXU bed narrowPeak optimal idr thresholded peaks ENCSR088HZI ChIP-seq EFO:0002357 SU-DHL-6 cell line Homo sapiens EZH2phosphoT487-human DNA see document see document False 2018-02-06 ENCODE 1, 2 ENCFF001TDO, ENCFF924QYS, ENCFF930CDD, ENCFF947XIL 27293 ENCODE Processing Pipeline b8106da77faf4812f9415741a7eae9df https://www.encodeproject.org/files/ENCFF061UXU/@@download/ENCFF061UXU.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, antibody characterized with exemption, mixed read lengths NTR biosample, experiment not submitted to GEO ENCFF002CVU bed narrowPeak optimal idr thresholded peaks ENCSR000DOA ChIP-seq EFO:0002067 K562 cell line Homo sapiens CCNT2-human DNA see document see document False 2011-10-29 ENCODE 478673 ENCODE Consortium Analysis Working Group 32c2e57570701d01ddb5dfa07e83b726 https://www.encodeproject.org/files/ENCFF002CVU/@@download/ENCFF002CVU.bed.gz hg19 released low read length, mixed read lengths biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CVR bed narrowPeak optimal idr thresholded peaks ENCSR000DOJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens BRF1-human DNA see document see document False 2011-10-29 ENCODE 5144 ENCODE Consortium Analysis Working Group 64986bc4157feecb565adbfe599fcc07 https://www.encodeproject.org/files/ENCFF002CVR/@@download/ENCFF002CVR.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CUJ bed narrowPeak optimal idr thresholded peaks ENCSR000EDS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAX-human DNA see document see document False 2012-05-14 ENCODE 305935 ENCODE Consortium Analysis Working Group a26edd5eb837b1e381118d2460558d40 https://www.encodeproject.org/files/ENCFF002CUJ/@@download/ENCFF002CUJ.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF922GRD bed narrowPeak optimal idr thresholded peaks ENCSR000EDS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAX-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF447AAX, ENCFF617LWA, ENCFF969FOU 271367 ENCODE Processing Pipeline 4f3c95d6b517e83237e0771cb7daffc3 https://www.encodeproject.org/files/ENCFF922GRD/@@download/ENCFF922GRD.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CKH bed narrowPeak optimal idr thresholded peaks ENCSR000BHP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOSL2-human DNA see document see document False 2011-07-18 ENCODE 630365 ENCODE Consortium Analysis Working Group dadb42dd9dc14b87216f6e61eb55680e https://www.encodeproject.org/files/ENCFF002CKH/@@download/ENCFF002CKH.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth biological replicates with identical biosample, missing derived_from ENCFF395KPJ bed narrowPeak optimal idr thresholded peaks ENCSR000BHP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOSL2-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF449NJO, ENCFF620ZIR, ENCFF661ITW 531483 ENCODE Processing Pipeline a2910e76c630f09cb73f1015633b84ff https://www.encodeproject.org/files/ENCFF395KPJ/@@download/ENCFF395KPJ.bed.gz hg19 released low read length, borderline replicate concordance, low read depth biological replicates with identical biosample ENCFF642BNC bed narrowPeak optimal idr thresholded peaks ENCSR699PVC ChIP-seq EFO:0002067 K562 cell line Homo sapiens CBFA2T2-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF341FSC, ENCFF723YNA, ENCFF866VBI 567549 ENCODE Processing Pipeline 9e6de62f30055b9cf52e5dfc02597efc https://www.encodeproject.org/files/ENCFF642BNC/@@download/ENCFF642BNC.bed.gz hg19 released mild to moderate bottlenecking ENCFF476URH bed narrowPeak optimal idr thresholded peaks ENCSR912NMR ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NONO-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF540KAO, ENCFF638XZN, ENCFF812IYD 74111 ENCODE Processing Pipeline 48db844ee2c1805a2828a25d5793f6f0 https://www.encodeproject.org/files/ENCFF476URH/@@download/ENCFF476URH.bed.gz hg19 released borderline replicate concordance ENCFF002CON bed narrowPeak optimal idr thresholded peaks ENCSR000DZE ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CHD1-human DNA see document see document False 2012-05-14 ENCODE 175765 ENCODE Consortium Analysis Working Group 34f9cca27fb8070cd9c4c9072f031e0f https://www.encodeproject.org/files/ENCFF002CON/@@download/ENCFF002CON.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF273ULT bed narrowPeak optimal idr thresholded peaks ENCSR000DZE ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CHD1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF136HKZ, ENCFF375HRI, ENCFF800PUH 174239 ENCODE Processing Pipeline cce4272ca16424b132c0f8a5bb7ad40f https://www.encodeproject.org/files/ENCFF273ULT/@@download/ENCFF273ULT.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CHT bed narrowPeak optimal idr thresholded peaks ENCSR000BJD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RXRA-human DNA see document see document False 2011-07-18 ENCODE 33163 ENCODE Consortium Analysis Working Group 1fcda1bc2495dce47bb851030913fa90 https://www.encodeproject.org/files/ENCFF002CHT/@@download/ENCFF002CHT.bed.gz hg19 archived low read length, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample insufficient read depth, poor library complexity, severe bottlenecking ENCFF461FGJ bed narrowPeak optimal idr thresholded peaks ENCSR000BJD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RXRA-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF222RUB, ENCFF455MUC, ENCFF595JYV 37777 ENCODE Processing Pipeline 47844d64dbbeff89ad267f2a4b329b58 https://www.encodeproject.org/files/ENCFF461FGJ/@@download/ENCFF461FGJ.bed.gz hg19 released low read length, mild to moderate bottlenecking biological replicates with identical biosample insufficient read depth, poor library complexity, severe bottlenecking ENCFF002CGF bed narrowPeak optimal idr thresholded peaks ENCSR000BPM ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour YY1-human DNA see document see document False 2012-02-29 ENCODE 225823 ENCODE Consortium Analysis Working Group 08d661b252ca4942d8a9c8bdb11857de https://www.encodeproject.org/files/ENCFF002CGF/@@download/ENCFF002CGF.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample, missing derived_from missing control alignments ENCFF713ISJ bed narrowPeak optimal idr thresholded peaks ENCSR000BPM ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour YY1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF515CEL, ENCFF697EFZ, ENCFF845YAV 301323 ENCODE Processing Pipeline e4881f3221759f989a49836abc46b388 https://www.encodeproject.org/files/ENCFF713ISJ/@@download/ENCFF713ISJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample missing control alignments ENCFF002CZT bed narrowPeak optimal idr thresholded peaks ENCSR000EWY ChIP-seq EFO:0005236 NT2/D1 cell line Homo sapiens ZNF274-human DNA see document see document False 2011-10-29 ENCODE 17080 ENCODE Consortium Analysis Working Group 57fb678cb81a0cb0bc0cd4329ecf7308 https://www.encodeproject.org/files/ENCFF002CZT/@@download/ENCFF002CZT.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF102VYH bed narrowPeak optimal idr thresholded peaks ENCSR000EWY ChIP-seq EFO:0005236 NT2/D1 cell line Homo sapiens ZNF274-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF237BUA, ENCFF562GZU, ENCFF715NVD 24193 ENCODE Processing Pipeline 83dfc249b0090c28a37144f1a52b85b5 https://www.encodeproject.org/files/ENCFF102VYH/@@download/ENCFF102VYH.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF985YVA bed narrowPeak optimal idr thresholded peaks ENCSR801BWR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF155-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF222QBM, ENCFF400PPT, ENCFF619PID 27199 ENCODE Processing Pipeline 72d818cee6bdbc1f5a25d993a04bf6bf https://www.encodeproject.org/files/ENCFF985YVA/@@download/ENCFF985YVA.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF502JKO bed narrowPeak optimal idr thresholded peaks ENCSR000DYC ChIP-seq EFO:0001086 A549 cell line Homo sapiens MYC-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF511NBR, ENCFF657NEN, ENCFF878NMO 176030 ENCODE Processing Pipeline 36b284c7db5e41dcb7214b5fbfe05542 https://www.encodeproject.org/files/ENCFF502JKO/@@download/ENCFF502JKO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CZX bed narrowPeak optimal idr thresholded peaks ENCSR000EXR ChIP-seq CL:0000765 erythroblast primary cell Homo sapiens GATA1-human DNA see document see document False 2011-10-29 ENCODE 59044 ENCODE Consortium Analysis Working Group 77c725f5d93f6ab088d6e5f4df5be40c https://www.encodeproject.org/files/ENCFF002CZX/@@download/ENCFF002CZX.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF762DRA bed narrowPeak optimal idr thresholded peaks ENCSR000EXR ChIP-seq CL:0000765 erythroblast primary cell Homo sapiens GATA1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF039AWP, ENCFF218LZW, ENCFF535FRY 45054 ENCODE Processing Pipeline c9f963785903b49b7b904c1bc8eee567 https://www.encodeproject.org/files/ENCFF762DRA/@@download/ENCFF762DRA.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample ENCFF002DCS bed narrowPeak optimal idr thresholded peaks ENCSR000DTL ChIP-seq CL:0000706 choroid plexus epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HKX, ENCFF001HLC 1206074 ENCODE Consortium Analysis Working Group caa5260e6a967b9abfb921c04eddf43d https://www.encodeproject.org/files/ENCFF002DCS/@@download/ENCFF002DCS.bed.gz hg19 archived moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth ENCFF700ILD bed narrowPeak optimal idr thresholded peaks ENCSR000DTL ChIP-seq CL:0000706 choroid plexus epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF009MRG, ENCFF507VHP, ENCFF680YPK 1007156 ENCODE Processing Pipeline 7b2e0a041b8477ea6dab8a9cee310a18 https://www.encodeproject.org/files/ENCFF700ILD/@@download/ENCFF700ILD.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth ENCFF592OWO bed narrowPeak optimal idr thresholded peaks ENCSR295GRB ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF213-human DNA formaldehyde False 2017-11-30 ENCODE 1, 2 ENCFF001TDO, ENCFF360FBE, ENCFF518HWU, ENCFF823NKG 290130 ENCODE Processing Pipeline d2950f567b50fa9114f3e4aca019f33d https://www.encodeproject.org/files/ENCFF592OWO/@@download/ENCFF592OWO.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF002DAT bed narrowPeak optimal idr thresholded peaks ENCSR000DLN ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MYC-human DNA see document see document False 2011-03-17 ENCODE 65300 ENCODE Consortium Analysis Working Group f4de50376077a81956bb99bdc2acd914 https://www.encodeproject.org/files/ENCFF002DAT/@@download/ENCFF002DAT.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length extremely low read depth ENCFF774QKS bed narrowPeak optimal idr thresholded peaks ENCSR219BXP ChIP-seq EFO:0002067 K562 cell line Homo sapiens DPF2-human DNA False 2017-11-14 ENCODE 1, 3 ENCFF001TDO, ENCFF209OUR, ENCFF400FLC, ENCFF403MEX 479386 ENCODE Processing Pipeline cc53d3d9760a5e427276184bfc555bbe https://www.encodeproject.org/files/ENCFF774QKS/@@download/ENCFF774QKS.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO ENCFF784YVX bed narrowPeak optimal idr thresholded peaks ENCSR680OFU ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens EP300-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF023IGO, ENCFF125VLX, ENCFF467DQG 390862 ENCODE Processing Pipeline b98b1c410b37001d2fca2870513dfffb https://www.encodeproject.org/files/ENCFF784YVX/@@download/ENCFF784YVX.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, antibody characterized with exemption experiment not submitted to GEO ENCFF557KGA bed narrowPeak optimal idr thresholded peaks ENCSR000BNA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZBTB33-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF734JFJ, ENCFF770YEM, ENCFF839PVK 40188 ENCODE Processing Pipeline aeba6b6c81f68e85e8ad06ed88b5c5cc https://www.encodeproject.org/files/ENCFF557KGA/@@download/ENCFF557KGA.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF445ANP bed narrowPeak optimal idr thresholded peaks ENCSR200CUA ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens HDGF-human DNA False 2016-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF026WLK, ENCFF766QJJ, ENCFF846AFR 78411 ENCODE Processing Pipeline 667ac466c60ad43c4538ca0023c227e1 https://www.encodeproject.org/files/ENCFF445ANP/@@download/ENCFF445ANP.bed.gz hg19 released borderline replicate concordance ENCFF002CNL bed narrowPeak optimal idr thresholded peaks ENCSR000BPA ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 570626 ENCODE Consortium Analysis Working Group 02ec64e92c3161603e7a04d225eae2a0 https://www.encodeproject.org/files/ENCFF002CNL/@@download/ENCFF002CNL.bed.gz hg19 archived low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF230DMM bed narrowPeak optimal idr thresholded peaks ENCSR000BPA ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF521MMQ, ENCFF784BHQ, ENCFF927MZZ 624914 ENCODE Processing Pipeline 397c2bbc368f84d16938fb2e507d69fe https://www.encodeproject.org/files/ENCFF230DMM/@@download/ENCFF230DMM.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF010UHD bed narrowPeak optimal idr thresholded peaks ENCSR968GIB ChIP-seq EFO:0002067 K562 cell line Homo sapiens RFX1-human DNA False 2016-09-20 ENCODE 3, 4 ENCFF001TDO, ENCFF163OZR, ENCFF733TAS, ENCFF786DOF 347670 ENCODE Processing Pipeline 807a6c046733e6afc5f75fcff16832d9 https://www.encodeproject.org/files/ENCFF010UHD/@@download/ENCFF010UHD.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF677ZDS bed narrowPeak optimal idr thresholded peaks ENCSR909HMT ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZEB1-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF346YEJ, ENCFF517JSD, ENCFF948YXD 255849 ENCODE Processing Pipeline 9ae3eb454ba08554fcfab1d654509042 https://www.encodeproject.org/files/ENCFF677ZDS/@@download/ENCFF677ZDS.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF453CYS bed narrowPeak optimal idr thresholded peaks ENCSR261EDU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MNT-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF233WRK, ENCFF471EDO, ENCFF777ZCS 662021 ENCODE Processing Pipeline 65e3de7b1b6c017563759ecdd75a19e1 https://www.encodeproject.org/files/ENCFF453CYS/@@download/ENCFF453CYS.bed.gz hg19 released ENCFF093OUB bed narrowPeak optimal idr thresholded peaks ENCSR313VZG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FIP1L1-human DNA SDS formaldehyde False 2018-01-19 ENCODE 1, 2 ENCFF001TDO, ENCFF085CEK, ENCFF774WWH, ENCFF940FLJ 68983 ENCODE Processing Pipeline 0a4e7d993d80ecf65920797b2053a03d https://www.encodeproject.org/files/ENCFF093OUB/@@download/ENCFF093OUB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity experiment not submitted to GEO insufficient read depth ENCFF002CSN bed narrowPeak optimal idr thresholded peaks ENCSR000EDK ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens SMARCB1-human DNA see document see document False 2011-10-29 ENCODE 162755 ENCODE Consortium Analysis Working Group 9fd526bcf7c99300f6f16574f691c695 https://www.encodeproject.org/files/ENCFF002CSN/@@download/ENCFF002CSN.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF107UHX bed narrowPeak optimal idr thresholded peaks ENCSR330OEO ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens HDAC2-human DNA False 2017-08-12 ENCODE 1, 2 ENCFF001TDO, ENCFF080QIA, ENCFF436WQE, ENCFF501TBE 29592 ENCODE Processing Pipeline 9a585121f338bdd33ad5fbf971a5b1a3 https://www.encodeproject.org/files/ENCFF107UHX/@@download/ENCFF107UHX.bed.gz hg19 released ENCFF221GWO bed narrowPeak optimal idr thresholded peaks ENCSR339JTP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RBM39-human DNA SDS formaldehyde False 2018-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF160DKY, ENCFF208QUF, ENCFF956IIT 594558 ENCODE Processing Pipeline e742d68591af71826952747fb951f4b2 https://www.encodeproject.org/files/ENCFF221GWO/@@download/ENCFF221GWO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF002CYJ bed narrowPeak optimal idr thresholded peaks ENCSR000EGB ChIP-seq EFO:0002067 K562 cell line Homo sapiens TBL1XR1-human DNA see document see document False 2012-05-14 ENCODE 190993 ENCODE Consortium Analysis Working Group ff50199d757b891bf404ac2488933573 https://www.encodeproject.org/files/ENCFF002CYJ/@@download/ENCFF002CYJ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF626MVT bed narrowPeak optimal idr thresholded peaks ENCSR000EGB ChIP-seq EFO:0002067 K562 cell line Homo sapiens TBL1XR1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF205BAR, ENCFF676HRI, ENCFF850MTK 276959 ENCODE Processing Pipeline 2431f6463d18398443482deaf2effc00 https://www.encodeproject.org/files/ENCFF626MVT/@@download/ENCFF626MVT.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent target of control experiment biological replicates with identical biosample ENCFF384YDT bed narrowPeak optimal idr thresholded peaks ENCSR376WCJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens IRF2-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF084ZRH, ENCFF663ORW, ENCFF903CMR 152742 ENCODE Processing Pipeline c35e488a7197f89d865f37f8aa5f4343 https://www.encodeproject.org/files/ENCFF384YDT/@@download/ENCFF384YDT.bed.gz hg19 released low read length ENCFF231TGQ bed narrowPeak optimal idr thresholded peaks ENCSR376WCJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens IRF2-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF063GMG, ENCFF135VWG, ENCFF770GWM 131926 ENCODE Processing Pipeline 18f3a5f97cca0b5c798f4d6623c542f8 https://www.encodeproject.org/files/ENCFF231TGQ/@@download/ENCFF231TGQ.bed.gz hg19 archived low read length ENCFF002CJK bed narrowPeak optimal idr thresholded peaks ENCSR000BIR ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SP1-human DNA see document see document False 2011-07-18 ENCODE 294919 ENCODE Consortium Analysis Working Group aab140e1c863b7cec5f3f96c7cb939e2 https://www.encodeproject.org/files/ENCFF002CJK/@@download/ENCFF002CJK.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF317TBZ bed narrowPeak optimal idr thresholded peaks ENCSR000BIR ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SP1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF384GPX, ENCFF668CZT, ENCFF721YVP 358846 ENCODE Processing Pipeline 153f620eadc2ac2a8cf56b12fe87a91e https://www.encodeproject.org/files/ENCFF317TBZ/@@download/ENCFF317TBZ.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF197YHU bed narrowPeak optimal idr thresholded peaks ENCSR643VTW ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMARCA4-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF622WDZ, ENCFF701XIM, ENCFF839WLX 578376 ENCODE Processing Pipeline 23f1dd4b6ba4d0826d8a51cdd0b8657d https://www.encodeproject.org/files/ENCFF197YHU/@@download/ENCFF197YHU.bed.gz hg19 released file validation error, borderline replicate concordance, antibody characterized with exemption mismatched file status ENCFF690BYG bed narrowPeak optimal idr thresholded peaks ENCSR254YRM ChIP-seq UBERON:0002107 liver tissue Homo sapiens CTCF-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF181QAF, ENCFF322UFN, ENCFF543EHV 653750 ENCODE Processing Pipeline b2a17b20c503b24c30195b69ff0f22f4 https://www.encodeproject.org/files/ENCFF690BYG/@@download/ENCFF690BYG.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment experiment not submitted to GEO missing input control missing control alignments ENCFF002DCU bed narrowPeak optimal idr thresholded peaks ENCSR000DTR ChIP-seq CL:0002252 epithelial cell of esophagus primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001XQP, ENCFF001XQQ 971278 ENCODE Consortium Analysis Working Group 5ae6a367e15ecc7f2c42171d320a6aa5 https://www.encodeproject.org/files/ENCFF002DCU/@@download/ENCFF002DCU.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms insufficient read depth missing control alignments ENCFF528VFN bed narrowPeak optimal idr thresholded peaks ENCSR000DTR ChIP-seq CL:0002252 epithelial cell of esophagus primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF015JHG, ENCFF114UPJ, ENCFF301DNK 789908 ENCODE Processing Pipeline a0f666e95ff0fbc506d613ddf1c48a4a https://www.encodeproject.org/files/ENCFF528VFN/@@download/ENCFF528VFN.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms insufficient read depth missing control alignments ENCFF850TPX bed narrowPeak optimal idr thresholded peaks ENCSR447ZTA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF558-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF322LBK, ENCFF499TCE, ENCFF987HTT 282591 ENCODE Processing Pipeline b697a9e3479545db2352820df431b92f https://www.encodeproject.org/files/ENCFF850TPX/@@download/ENCFF850TPX.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF215YWS bed narrowPeak optimal idr thresholded peaks ENCSR819ATC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MYB-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF064VGD, ENCFF684XYC, ENCFF696VJM 68608 ENCODE Processing Pipeline 8ed3e2fdd452d687250b30c3559dcba6 https://www.encodeproject.org/files/ENCFF215YWS/@@download/ENCFF215YWS.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF103IOJ bed narrowPeak optimal idr thresholded peaks ENCSR819ATC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MYB-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF214BKN, ENCFF285WIV, ENCFF431SLO 58114 ENCODE Processing Pipeline c2b96d2f10d13460597b65d1177b6930 https://www.encodeproject.org/files/ENCFF103IOJ/@@download/ENCFF103IOJ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF011KRN bed narrowPeak optimal idr thresholded peaks ENCSR189PYJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMAD2-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF382SAW, ENCFF397JDZ, ENCFF739IDN 4102 ENCODE Processing Pipeline 860948dc5236c346a8d693f201db3312 https://www.encodeproject.org/files/ENCFF011KRN/@@download/ENCFF011KRN.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF870PWV bed narrowPeak optimal idr thresholded peaks ENCSR189PYJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMAD2-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF181NNV, ENCFF292NAI, ENCFF688TJX 3045 ENCODE Processing Pipeline 986967daa8d46a11dc6651f790c0f80b https://www.encodeproject.org/files/ENCFF870PWV/@@download/ENCFF870PWV.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth ENCFF955YVT bed narrowPeak optimal idr thresholded peaks ENCSR899BKM ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF687-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF212CTS, ENCFF239TWK, ENCFF301EVY 372682 ENCODE Processing Pipeline f2b2b0248778f4e9e3bc207e5f52722e https://www.encodeproject.org/files/ENCFF955YVT/@@download/ENCFF955YVT.bed.gz hg19 released ENCFF027VZK bed narrowPeak optimal idr thresholded peaks ENCSR778UBR ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ARID3A-human DNA False 2017-01-31 ENCODE 5, 6 ENCFF001TDO, ENCFF644NTF, ENCFF716JVW, ENCFF877OQG 407625 ENCODE Processing Pipeline 145ef2f15c8164240d4f149dfa7e5c62 https://www.encodeproject.org/files/ENCFF027VZK/@@download/ENCFF027VZK.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF002CVG bed narrowPeak optimal idr thresholded peaks ENCSR000EFM ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens CEBPB-human DNA see document see document False 2012-05-14 ENCODE 1544124 ENCODE Consortium Analysis Working Group fd7d9e0db03cd8c7fcb3ab3a1da534d7 https://www.encodeproject.org/files/ENCFF002CVG/@@download/ENCFF002CVG.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF456GRS bed narrowPeak optimal idr thresholded peaks ENCSR000EFM ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens CEBPB-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF460AIN, ENCFF563ZYA, ENCFF604LSK 1353644 ENCODE Processing Pipeline 932e0d57da9a823c1dcdabd472985703 https://www.encodeproject.org/files/ENCFF456GRS/@@download/ENCFF456GRS.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF170OWD bed narrowPeak optimal idr thresholded peaks ENCSR632SIM ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZFHX2-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF527VLA, ENCFF886CWH, ENCFF949SRY 1172644 ENCODE Processing Pipeline 292ab8765c6e776f8f8ddc7e4a36dd55 https://www.encodeproject.org/files/ENCFF170OWD/@@download/ENCFF170OWD.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF238MYM bed narrowPeak optimal idr thresholded peaks ENCSR385AHH ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF24-human DNA False 2016-04-21 ENCODE 2, 3 ENCFF001TDO, ENCFF186JNG, ENCFF420MBN, ENCFF980UAQ 280876 ENCODE Processing Pipeline e3c5e27d52c123cb162294504181685d https://www.encodeproject.org/files/ENCFF238MYM/@@download/ENCFF238MYM.bed.gz hg19 released ENCFF002CWJ bed narrowPeak optimal idr thresholded peaks ENCSR000EGC ChIP-seq EFO:0002067 K562 cell line Homo sapiens RCOR1-human DNA see document see document False 2012-05-14 ENCODE 157869 ENCODE Consortium Analysis Working Group 00c00dfe8c61c384b777f1d95c60fc29 https://www.encodeproject.org/files/ENCFF002CWJ/@@download/ENCFF002CWJ.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF484CKD bed narrowPeak optimal idr thresholded peaks ENCSR000EGC ChIP-seq EFO:0002067 K562 cell line Homo sapiens RCOR1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF477PXF, ENCFF620JKI, ENCFF959MXK 122282 ENCODE Processing Pipeline d8f4094f757d447fef0084be8473dbd0 https://www.encodeproject.org/files/ENCFF484CKD/@@download/ENCFF484CKD.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CRE bed narrowPeak optimal idr thresholded peaks ENCSR000ECF ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RFX5-human DNA see document see document False 2011-10-29 ENCODE 45540 ENCODE Consortium Analysis Working Group 00ef9b64eaa81ab9f224df53b1a1b882 https://www.encodeproject.org/files/ENCFF002CRE/@@download/ENCFF002CRE.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF447QXT bed narrowPeak optimal idr thresholded peaks ENCSR000ECF ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RFX5-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF107RYF, ENCFF323MMZ, ENCFF577WFW 42015 ENCODE Processing Pipeline 2c4ecf570a93875da4f921f636a2e02f https://www.encodeproject.org/files/ENCFF447QXT/@@download/ENCFF447QXT.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF365NKO bed narrowPeak optimal idr thresholded peaks ENCSR426MDV ChIP-seq EFO:0002067 K562 cell line Homo sapiens MIER1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF438RUW, ENCFF601IZU, ENCFF648JAT 150984 ENCODE Processing Pipeline 76edeea358cea581c91fbf496c434e0a https://www.encodeproject.org/files/ENCFF365NKO/@@download/ENCFF365NKO.bed.gz hg19 released mild to moderate bottlenecking, low read depth, antibody characterized with exemption ENCFF759MVB bed narrowPeak optimal idr thresholded peaks ENCSR513UQG ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens USF2-human DNA False 2017-06-15 ENCODE 1, 2 ENCFF001TDO, ENCFF343SNV, ENCFF362TZV, ENCFF882BWU 302978 ENCODE Processing Pipeline 5ef7807270fa0069761abc85d7009e7d https://www.encodeproject.org/files/ENCFF759MVB/@@download/ENCFF759MVB.bed.gz hg19 released file validation error, low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption mismatched file status ENCFF231YQK bed narrowPeak optimal idr thresholded peaks ENCSR760AAY ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-PRDM12-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF568MUB, ENCFF669JCO, ENCFF774LOS 108058 ENCODE Processing Pipeline afea713b3d25a677c0b3879421aeb5cd https://www.encodeproject.org/files/ENCFF231YQK/@@download/ENCFF231YQK.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF002COV bed narrowPeak optimal idr thresholded peaks ENCSR000EYV ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens JUND-human DNA see document see document False 2011-10-29 ENCODE 54938 ENCODE Consortium Analysis Working Group 1624be090891349e91ac01a901993f79 https://www.encodeproject.org/files/ENCFF002COV/@@download/ENCFF002COV.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF384XDG bed narrowPeak optimal idr thresholded peaks ENCSR362CPB ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HDAC1-human DNA False 2017-07-27 ENCODE 1, 2 ENCFF001TDO, ENCFF143UBP, ENCFF768XZW, ENCFF885ZDD 392563 ENCODE Processing Pipeline 8f5eb0c069de07fba74999ecefd5725f https://www.encodeproject.org/files/ENCFF384XDG/@@download/ENCFF384XDG.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance experiment not submitted to GEO ENCFF002CPC bed narrowPeak optimal idr thresholded peaks ENCSR000DNM ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFYB-human DNA see document see document False 2011-10-29 ENCODE 315076 ENCODE Consortium Analysis Working Group f8e79da909dc1a5e6eb85eb558620f7e https://www.encodeproject.org/files/ENCFF002CPC/@@download/ENCFF002CPC.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF467NRS bed narrowPeak optimal idr thresholded peaks ENCSR000DNM ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFYB-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF350IOX, ENCFF655JXN, ENCFF911SLA 228205 ENCODE Processing Pipeline b44b4a58544f06561d144f4cb4004cef https://www.encodeproject.org/files/ENCFF467NRS/@@download/ENCFF467NRS.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample insufficient read depth ENCFF002CGM bed narrowPeak optimal idr thresholded peaks ENCSR000BJC ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens dexamethasone 100 nM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 216224 ENCODE Consortium Analysis Working Group 37fb51b44639c4bd578d332ce6d50cbc https://www.encodeproject.org/files/ENCFF002CGM/@@download/ENCFF002CGM.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF585YYZ bed narrowPeak optimal idr thresholded peaks ENCSR000BJC ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens dexamethasone 100 nM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF417EBM, ENCFF576VMW, ENCFF784YSB 206771 ENCODE Processing Pipeline f00ca8d99f488bc57ab4e492958d8b45 https://www.encodeproject.org/files/ENCFF585YYZ/@@download/ENCFF585YYZ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample insufficient read depth ENCFF444SHN bed narrowPeak optimal idr thresholded peaks ENCSR669GUM ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF404-human DNA formaldehyde False 2017-02-13 ENCODE 1, 2 ENCFF001TDO, ENCFF435TEK, ENCFF934NER, ENCFF971KSX 44237 ENCODE Processing Pipeline f64b811e5127f65dac36056bf560d393 https://www.encodeproject.org/files/ENCFF444SHN/@@download/ENCFF444SHN.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF068QHA bed narrowPeak optimal idr thresholded peaks ENCSR906PCS ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF223-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF720XGM, ENCFF933RNJ, ENCFF984YVX 103443 ENCODE Processing Pipeline 27a4bb84093b62f0d09071bee162af84 https://www.encodeproject.org/files/ENCFF068QHA/@@download/ENCFF068QHA.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF173WPK bed narrowPeak optimal idr thresholded peaks ENCSR858FAN ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF621-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF138COW, ENCFF461NGI, ENCFF671JOB 39220 ENCODE Processing Pipeline 7eb87475f2a2d6d8d088532e968a768c https://www.encodeproject.org/files/ENCFF173WPK/@@download/ENCFF173WPK.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF641HNH bed narrowPeak optimal idr thresholded peaks ENCSR567XAM ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF473-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF095ZGW, ENCFF285HJS, ENCFF552RRZ 45163 ENCODE Processing Pipeline 568cee132d134200697734e414e85ccf https://www.encodeproject.org/files/ENCFF641HNH/@@download/ENCFF641HNH.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF612GGC bed narrowPeak optimal idr thresholded peaks ENCSR676ZEF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF398-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF021ZLO, ENCFF268AOU, ENCFF321GPP 528273 ENCODE Processing Pipeline 378bd778bb7a3d6f6005772d59536ab0 https://www.encodeproject.org/files/ENCFF612GGC/@@download/ENCFF612GGC.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF499ZPP bed narrowPeak optimal idr thresholded peaks ENCSR751CJG ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CHD4-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF477RJI, ENCFF544DYV, ENCFF593OVL 24795 ENCODE Processing Pipeline 93fe1707c7f50858be94b6b89ee09ba4 https://www.encodeproject.org/files/ENCFF499ZPP/@@download/ENCFF499ZPP.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF002CTG bed narrowPeak optimal idr thresholded peaks ENCSR000EZK ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens interferon gamma 30.0 minute STAT1-human DNA see document see document False 2011-10-29 ENCODE 345134 ENCODE Consortium Analysis Working Group dc02ec56d2dfe26638e95c008cf01f74 https://www.encodeproject.org/files/ENCFF002CTG/@@download/ENCFF002CTG.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CKT bed narrowPeak optimal idr thresholded peaks ENCSR000BJL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 152976 ENCODE Consortium Analysis Working Group 393b6967f22a5787bb74536e5846ef76 https://www.encodeproject.org/files/ENCFF002CKT/@@download/ENCFF002CKT.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF153JLK bed narrowPeak optimal idr thresholded peaks ENCSR000BJL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF413BWR, ENCFF816UIF, ENCFF884SBE 82634 ENCODE Processing Pipeline cc4c628548dadf6eff641ba4393fd6fd https://www.encodeproject.org/files/ENCFF153JLK/@@download/ENCFF153JLK.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF628SBD bed narrowPeak optimal idr thresholded peaks ENCSR663ZZZ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MNT-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF012KYI, ENCFF484KOR, ENCFF586OYO 622826 ENCODE Processing Pipeline da9f6a09b033a047b60fe4152bb04d96 https://www.encodeproject.org/files/ENCFF628SBD/@@download/ENCFF628SBD.bed.gz hg19 released mild to moderate bottlenecking ENCFF412CLP bed narrowPeak optimal idr thresholded peaks ENCSR663ZZZ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MNT-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF463JPP, ENCFF528VWM, ENCFF531WHZ 548160 ENCODE Processing Pipeline c81fa39d52f49f8bcf8dbf46d349160e https://www.encodeproject.org/files/ENCFF412CLP/@@download/ENCFF412CLP.bed.gz hg19 archived mild to moderate bottlenecking ENCFF664ZGR bed narrowPeak optimal idr thresholded peaks ENCSR742IDN ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR2C1-human DNA False 2017-01-27 ENCODE 1, 2 ENCFF001TDO, ENCFF406JPU, ENCFF497RBU, ENCFF735EGA 286705 ENCODE Processing Pipeline 99866240a9404333b974b22bd1667736 https://www.encodeproject.org/files/ENCFF664ZGR/@@download/ENCFF664ZGR.bed.gz hg19 released file validation error, mild to moderate bottlenecking, antibody characterized with exemption mismatched file status ENCFF002CGI bed narrowPeak optimal idr thresholded peaks ENCSR000BQR ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens bisphenol A 100 nM 1 hour ESR1-human DNA see document see document False 2012-02-29 ENCODE 114872 ENCODE Consortium Analysis Working Group 24d6079f95b3d4eb84d699296b9a8a73 https://www.encodeproject.org/files/ENCFF002CGI/@@download/ENCFF002CGI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF078ATU bed narrowPeak optimal idr thresholded peaks ENCSR000BQR ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens bisphenol A 100 nM 1 hour ESR1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF887WVD, ENCFF904GCW, ENCFF986YIT 88917 ENCODE Processing Pipeline c2d7cbb3ffcb246c8d1e914492ba66b3 https://www.encodeproject.org/files/ENCFF078ATU/@@download/ENCFF078ATU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF047LUI bed narrowPeak optimal idr thresholded peaks ENCSR631WAA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB17-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF399EOS, ENCFF583KAL, ENCFF590PHP 1168060 ENCODE Processing Pipeline 878fa1989de13c176ac84a1bb2789809 https://www.encodeproject.org/files/ENCFF047LUI/@@download/ENCFF047LUI.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF265HWY bed narrowPeak optimal idr thresholded peaks ENCSR178QVJ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF274-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF436YZZ, ENCFF454YEP, ENCFF541ROJ 45886 ENCODE Processing Pipeline 1747130c7d70af102753a38155223689 https://www.encodeproject.org/files/ENCFF265HWY/@@download/ENCFF265HWY.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF201GAD bed narrowPeak optimal idr thresholded peaks ENCSR382GSF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-INSM2-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF092PBW, ENCFF118XAI, ENCFF915QWH 324687 ENCODE Processing Pipeline 27bc97970bb8935cd06aaab50d426d1b https://www.encodeproject.org/files/ENCFF201GAD/@@download/ENCFF201GAD.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF234WBT bed narrowPeak optimal idr thresholded peaks ENCSR351NON ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF629-human DNA formaldehyde False 2017-04-14 ENCODE 2, 3 ENCFF001TDO, ENCFF265EFR, ENCFF331WRD, ENCFF643LTW 778802 ENCODE Processing Pipeline 33a194f80f6e579ee22e3af25ba926d8 https://www.encodeproject.org/files/ENCFF234WBT/@@download/ENCFF234WBT.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF539NTA bed narrowPeak optimal idr thresholded peaks ENCSR791AGT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZNF24-human DNA False 2018-01-29 ENCODE 2, 3 ENCFF001TDO, ENCFF106XCP, ENCFF415JVE, ENCFF852WZC 129205 ENCODE Processing Pipeline bf9b021386c9ca484566857247f651cb https://www.encodeproject.org/files/ENCFF539NTA/@@download/ENCFF539NTA.bed.gz hg19 released experiment not submitted to GEO ENCFF810CEL bed narrowPeak optimal idr thresholded peaks ENCSR514VYD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NR2F1-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF241KMD, ENCFF766CJW, ENCFF878DLA 755749 ENCODE Processing Pipeline 6f809f7b7c61d376d524f1789d35c3dd https://www.encodeproject.org/files/ENCFF810CEL/@@download/ENCFF810CEL.bed.gz hg19 released mild to moderate bottlenecking ENCFF648HOQ bed narrowPeak optimal idr thresholded peaks ENCSR298QUH ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-MZF1-human DNA formaldehyde False 2017-11-28 ENCODE 1, 2 ENCFF001TDO, ENCFF066CDS, ENCFF915EDD, ENCFF977LDX 355104 ENCODE Processing Pipeline 0825488f59b4fbe8990ffac4231a7b7b https://www.encodeproject.org/files/ENCFF648HOQ/@@download/ENCFF648HOQ.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF441VSN bed narrowPeak optimal idr thresholded peaks ENCSR253CKN ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZSCAN21-human DNA formaldehyde False 2017-04-05 ENCODE 1, 2 ENCFF001TDO, ENCFF097BFF, ENCFF270TNU, ENCFF919LFI 417156 ENCODE Processing Pipeline 82d6ea6c4153461fb6faa10a36f1ace0 https://www.encodeproject.org/files/ENCFF441VSN/@@download/ENCFF441VSN.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF954HYI bed narrowPeak optimal idr thresholded peaks ENCSR996FYT ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF202-human DNA formaldehyde False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF016TVQ, ENCFF501UFT, ENCFF627HIA 129494 ENCODE Processing Pipeline 38ec8d2515e424a6dd80d7b526ba6e7a https://www.encodeproject.org/files/ENCFF954HYI/@@download/ENCFF954HYI.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF808WQI bed narrowPeak optimal idr thresholded peaks ENCSR029IBC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ARNT-human DNA False 2017-01-31 ENCODE 1, 2 ENCFF001TDO, ENCFF078MLZ, ENCFF409LKX, ENCFF469FRK 24535 ENCODE Processing Pipeline 0abe74aad8be20ae1d2cdd97ab5fb152 https://www.encodeproject.org/files/ENCFF808WQI/@@download/ENCFF808WQI.bed.gz hg19 released borderline replicate concordance ENCFF333PHT bed narrowPeak optimal idr thresholded peaks ENCSR167XFW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF544-human DNA formaldehyde False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF084FUN, ENCFF696TNJ, ENCFF781CDG 38238 ENCODE Processing Pipeline d27d77ad8c6434edfbc66063c9d195bf https://www.encodeproject.org/files/ENCFF333PHT/@@download/ENCFF333PHT.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF002CTZ bed narrowPeak optimal idr thresholded peaks ENCSR000EDQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RCOR1-human DNA see document see document False 2012-05-14 ENCODE 141990 ENCODE Consortium Analysis Working Group 330d3aba535dd65dec36da67b6cf22f3 https://www.encodeproject.org/files/ENCFF002CTZ/@@download/ENCFF002CTZ.bed.gz hg19 archived low read length, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF706RIA bed narrowPeak optimal idr thresholded peaks ENCSR000EDQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RCOR1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF119GVR, ENCFF531FFM, ENCFF827IXZ 101271 ENCODE Processing Pipeline 6d0a14b130b1f915375be8647eed081c https://www.encodeproject.org/files/ENCFF706RIA/@@download/ENCFF706RIA.bed.gz hg19 released low read length, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample ENCFF478MPX bed narrowPeak optimal idr thresholded peaks ENCSR072VUO ChIP-seq EFO:0002067 K562 cell line Homo sapiens SAFB-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF297NXF, ENCFF415VFS, ENCFF677EHH 103463 ENCODE Processing Pipeline 9fb7ae5d6f5c3136f59945fe5c9a510c https://www.encodeproject.org/files/ENCFF478MPX/@@download/ENCFF478MPX.bed.gz hg19 released low read length, borderline replicate concordance, low read depth experiment not submitted to GEO ENCFF015YHT bed narrowPeak optimal idr thresholded peaks ENCSR342THD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BCLAF1-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF082QVO, ENCFF222GJV, ENCFF308RFY 53338 ENCODE Processing Pipeline a8cfce2cd4f95a90ebe3f1b1704ea0a7 https://www.encodeproject.org/files/ENCFF015YHT/@@download/ENCFF015YHT.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, antibody characterized with exemption ENCFF273TYA bed narrowPeak optimal idr thresholded peaks ENCSR249BHQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF592-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF322TVZ, ENCFF363AAC, ENCFF537WLH 662184 ENCODE Processing Pipeline c8ba92b030fc5472424b29f32f637dc7 https://www.encodeproject.org/files/ENCFF273TYA/@@download/ENCFF273TYA.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF258RWN bed narrowPeak optimal idr thresholded peaks ENCSR359LOD ChIP-seq EFO:0002074 PC-3 cell line Homo sapiens CTCF-human DNA see document see document False 2017-10-19 ENCODE 1, 2 ENCFF001TDO, ENCFF646CMN, ENCFF752ZNY, ENCFF888CCA 1222113 ENCODE Processing Pipeline 56a529d11450f4ff7814d1699245ec5f https://www.encodeproject.org/files/ENCFF258RWN/@@download/ENCFF258RWN.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF530FZL bed narrowPeak optimal idr thresholded peaks ENCSR189VXS ChIP-seq EFO:0002067 K562 cell line Homo sapiens GTF2F1-human DNA False 2018-01-30 ENCODE 1, 2 ENCFF001TDO, ENCFF007QMQ, ENCFF601KTD, ENCFF846SYJ 329728 ENCODE Processing Pipeline 777dde87a6c7533afb8183cab4ad171f https://www.encodeproject.org/files/ENCFF530FZL/@@download/ENCFF530FZL.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF240PYU bed narrowPeak optimal idr thresholded peaks ENCSR906PEI ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens SP1-human DNA False 2017-05-18 ENCODE 1, 2 ENCFF001TDO, ENCFF333AFS, ENCFF713XLB, ENCFF730EIH 22954 ENCODE Processing Pipeline 94f3b9561dab2bf41b16692b087cccd7 https://www.encodeproject.org/files/ENCFF240PYU/@@download/ENCFF240PYU.bed.gz hg19 released ENCFF653ZMJ bed narrowPeak optimal idr thresholded peaks ENCSR756ZKG ChIP-seq EFO:0006710 OCI-LY3 cell line Homo sapiens CTCF-human DNA see document see document False 2014-07-11 ENCODE 1, 2 ENCFF001TDO, ENCFF662BPG, ENCFF763SUY, ENCFF935FTJ 935049 ENCODE Processing Pipeline 39fc52436e5ef8b2ecdc550dde48f11d https://www.encodeproject.org/files/ENCFF653ZMJ/@@download/ENCFF653ZMJ.bed.gz hg19 released low read length, low read depth, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF195ODE bed narrowPeak optimal idr thresholded peaks ENCSR557RVF ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZHX1-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF194DPB, ENCFF608GUA, ENCFF924ENQ 66009 ENCODE Processing Pipeline a1e2f7cfe616efa0fd80d7f1210ba11f https://www.encodeproject.org/files/ENCFF195ODE/@@download/ENCFF195ODE.bed.gz hg19 released low read length, low read depth ENCFF223KKR bed narrowPeak optimal idr thresholded peaks ENCSR557RVF ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZHX1-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF076QRM, ENCFF207BTX, ENCFF349DOV 56943 ENCODE Processing Pipeline 1fb0605c8d59b50eb5d2ab330e5e849b https://www.encodeproject.org/files/ENCFF223KKR/@@download/ENCFF223KKR.bed.gz hg19 archived low read length, low read depth ENCFF280GTU bed narrowPeak optimal idr thresholded peaks ENCSR657JLK ChIP-seq EFO:0002067 K562 cell line Homo sapiens SIN3B-human DNA False 2017-01-31 ENCODE 5, 6 ENCFF001TDO, ENCFF197DMK, ENCFF251WTS, ENCFF901YWM 190738 ENCODE Processing Pipeline d3745e7133f56987c46493d8e6d4c989 https://www.encodeproject.org/files/ENCFF280GTU/@@download/ENCFF280GTU.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF914RFS bed narrowPeak optimal idr thresholded peaks ENCSR803EKW ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOA2-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF208GKL, ENCFF676OHT, ENCFF809LWB 59210 ENCODE Processing Pipeline 289ffb2b564ccc8cc2ef594a4cfcf6d4 https://www.encodeproject.org/files/ENCFF914RFS/@@download/ENCFF914RFS.bed.gz hg19 released file validation error, mild to moderate bottlenecking mismatched file status, experiment not submitted to GEO partially characterized antibody ENCFF769NCM bed narrowPeak optimal idr thresholded peaks ENCSR046HGP ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens EZH2-human DNA False 2017-11-18 ENCODE 1, 2 ENCFF001TDO, ENCFF014MFB, ENCFF782VWT, ENCFF905USH 13732 ENCODE Processing Pipeline 81fa11809db03d52ce78b886f3c317fc https://www.encodeproject.org/files/ENCFF769NCM/@@download/ENCFF769NCM.bed.gz hg19 released mixed run types, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF002CPT bed narrowPeak optimal idr thresholded peaks ENCSR000DZU ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens USF2-human DNA see document see document False 2011-10-29 ENCODE 226110 ENCODE Consortium Analysis Working Group 7f1d056d70a7f7880977c4d9e1d0521e https://www.encodeproject.org/files/ENCFF002CPT/@@download/ENCFF002CPT.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF372DRC bed narrowPeak optimal idr thresholded peaks ENCSR000DZU ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens USF2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF023RDZ, ENCFF485PHV, ENCFF548FHH 139589 ENCODE Processing Pipeline c0e28ff4091658d0e94ba0a69b97e145 https://www.encodeproject.org/files/ENCFF372DRC/@@download/ENCFF372DRC.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF127GYQ bed narrowPeak optimal idr thresholded peaks ENCSR961PPA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ATF2-human DNA False 2016-10-26 ENCODE 1, 2 ENCFF001TDO, ENCFF147CFU, ENCFF301WWU, ENCFF869LKG 340897 ENCODE Processing Pipeline 0ac1a8c909c53b83c0eab8dd64d2ff69 https://www.encodeproject.org/files/ENCFF127GYQ/@@download/ENCFF127GYQ.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF161PGD bed narrowPeak optimal idr thresholded peaks ENCSR112ALD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CREB1-human DNA False 2017-11-14 ENCODE 2, 3 ENCFF001TDO, ENCFF365ROK, ENCFF708DXF, ENCFF732KKY 753611 ENCODE Processing Pipeline 8cffc6ccd34129dc10ef7665da0c304d https://www.encodeproject.org/files/ENCFF161PGD/@@download/ENCFF161PGD.bed.gz hg19 released experiment not submitted to GEO ENCFF002CPV bed narrowPeak optimal idr thresholded peaks ENCSR000EUM ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens YY1-human DNA see document see document False 2011-10-29 ENCODE 54998 ENCODE Consortium Analysis Working Group fb00e0287a7d814462df012a01632819 https://www.encodeproject.org/files/ENCFF002CPV/@@download/ENCFF002CPV.bed.gz hg19 archived missing derived_from control insufficient read depth, insufficient read depth, insufficient read length ENCFF553QNS bed narrowPeak optimal idr thresholded peaks ENCSR460MBI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB20-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF075ICN, ENCFF442GEH, ENCFF751QTK 756903 ENCODE Processing Pipeline 142f59447cd8479a39e335075078acc9 https://www.encodeproject.org/files/ENCFF553QNS/@@download/ENCFF553QNS.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF948QME bed narrowPeak optimal idr thresholded peaks ENCSR019KPC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens PLRG1-human DNA False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF351PSH, ENCFF808TMF, ENCFF871CGQ 38419 ENCODE Processing Pipeline c0ded052ea5a5545e0986aca0b1ddaf1 https://www.encodeproject.org/files/ENCFF948QME/@@download/ENCFF948QME.bed.gz hg19 released file validation error, borderline replicate concordance mismatched file status ENCFF968JVX bed narrowPeak optimal idr thresholded peaks ENCSR395HWC ChIP-seq EFO:0002067 K562 cell line Homo sapiens IKZF1-human DNA False 2016-04-22 ENCODE 1, 2 ENCFF001TDO, ENCFF038VEX, ENCFF669ACI, ENCFF723ESB 853540 ENCODE Processing Pipeline 684bdc0057a6241a64f889a8afb4cd56 https://www.encodeproject.org/files/ENCFF968JVX/@@download/ENCFF968JVX.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF997AAW bed narrowPeak optimal idr thresholded peaks ENCSR529JYA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HCFC1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF103LIH, ENCFF708LWT, ENCFF738IWJ 112216 ENCODE Processing Pipeline 53a70ccc5c4326fe942b548aae05eb6b https://www.encodeproject.org/files/ENCFF997AAW/@@download/ENCFF997AAW.bed.gz hg19 released low read length, low read depth ENCFF712YRN bed narrowPeak optimal idr thresholded peaks ENCSR529JYA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HCFC1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF051FVN, ENCFF676HIP, ENCFF766CME 100682 ENCODE Processing Pipeline f8023ab6ff76251a27263977e1fd3d00 https://www.encodeproject.org/files/ENCFF712YRN/@@download/ENCFF712YRN.bed.gz hg19 archived low read length, low read depth ENCFF609YST bed narrowPeak optimal idr thresholded peaks ENCSR376FMN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens EHMT2-human DNA False 2017-08-12 ENCODE 1, 2 ENCFF001TDO, ENCFF235LYZ, ENCFF326NFT, ENCFF641ZKN 213107 ENCODE Processing Pipeline 406c5218653fd7558c5581de373c2041 https://www.encodeproject.org/files/ENCFF609YST/@@download/ENCFF609YST.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, antibody characterized with exemption experiment not submitted to GEO ENCFF002CYY bed narrowPeak optimal idr thresholded peaks ENCSR000DON ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens afimoxifene 1.0 μM 36.0 hour FOS-human DNA see document see document False 2012-05-14 ENCODE 1357216 ENCODE Consortium Analysis Working Group 948a3af044b38668cd14d1fa16954823 https://www.encodeproject.org/files/ENCFF002CYY/@@download/ENCFF002CYY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, duplicate lane review, missing derived_from missing control alignments ENCFF988HJD bed narrowPeak optimal idr thresholded peaks ENCSR000DON ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens afimoxifene 1.0 μM 36.0 hour FOS-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF215QRX, ENCFF494HZF, ENCFF639ZSQ 1252109 ENCODE Processing Pipeline bddbf848bde7839ac92b90dde93d3edf https://www.encodeproject.org/files/ENCFF988HJD/@@download/ENCFF988HJD.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, duplicate lane review missing control alignments ENCFF711WEI bed narrowPeak optimal idr thresholded peaks ENCSR897RVP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF514-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF073ZAT, ENCFF485TME, ENCFF621KDY 31499 ENCODE Processing Pipeline 851ce7313343e5d2f6aecb2b7db5ba12 https://www.encodeproject.org/files/ENCFF711WEI/@@download/ENCFF711WEI.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF544CYG bed narrowPeak optimal idr thresholded peaks ENCSR801SWX ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens TARDBP-human DNA False 2017-02-01 ENCODE 1, 2 ENCFF001TDO, ENCFF319FAG, ENCFF411PFB, ENCFF480TTE 222654 ENCODE Processing Pipeline 00341568066ea40847437d46812194c5 https://www.encodeproject.org/files/ENCFF544CYG/@@download/ENCFF544CYG.bed.gz hg19 released ENCFF974OIC bed narrowPeak optimal idr thresholded peaks ENCSR407BEZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZHX2-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF236YIV, ENCFF392FYA, ENCFF640NJO 181311 ENCODE Processing Pipeline 79e70a2005e90b9615aa7013c7effab6 https://www.encodeproject.org/files/ENCFF974OIC/@@download/ENCFF974OIC.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF733UTZ bed narrowPeak optimal idr thresholded peaks ENCSR412QBS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TARDBP-human DNA False 2016-04-22 ENCODE 1, 2 ENCFF001TDO, ENCFF016QUV, ENCFF187SWR, ENCFF354CAT 438542 ENCODE Processing Pipeline 857832d61646de57b072948b6b33b410 https://www.encodeproject.org/files/ENCFF733UTZ/@@download/ENCFF733UTZ.bed.gz hg19 released ENCFF002DCB bed narrowPeak optimal idr thresholded peaks ENCSR000DQD ChIP-seq EFO:0005725 BE2C cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001GYW, ENCFF001GZC 1096428 ENCODE Consortium Analysis Working Group 200533e7cc808f8521c4b2cbdc0ac122 https://www.encodeproject.org/files/ENCFF002DCB/@@download/ENCFF002DCB.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth ENCFF965BBC bed narrowPeak optimal idr thresholded peaks ENCSR000DQD ChIP-seq EFO:0005725 BE2C cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF082FUL, ENCFF535IOO, ENCFF863FFV 905006 ENCODE Processing Pipeline b391745a29366760d1126d5c58fd8512 https://www.encodeproject.org/files/ENCFF965BBC/@@download/ENCFF965BBC.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF038MCY bed narrowPeak optimal idr thresholded peaks ENCSR887LYD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SMARCC2-human DNA False 2017-06-26 ENCODE 1, 2 ENCFF001TDO, ENCFF497HNH, ENCFF677VMG, ENCFF861IZT 47141 ENCODE Processing Pipeline aa06ca4c79d567315ac87a58cd2094a4 https://www.encodeproject.org/files/ENCFF038MCY/@@download/ENCFF038MCY.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF002DBJ bed narrowPeak optimal idr thresholded peaks ENCSR000DMS ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens 17β-estradiol 100 nM 45 minute CTCF-human DNA see document see document False 2011-03-17 ENCODE 1480247 ENCODE Consortium Analysis Working Group c7819cf56ead7511c33aaac594c6aa44 https://www.encodeproject.org/files/ENCFF002DBJ/@@download/ENCFF002DBJ.bed.gz hg19 archived low read length, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample missing control alignments ENCFF136BEY bed narrowPeak optimal idr thresholded peaks ENCSR000DMS ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens 17β-estradiol 100 nM 45 minute CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF007EZA, ENCFF217YFS, ENCFF438DXI 1074391 ENCODE Processing Pipeline f0937e8a61eef201006009516fe71acb https://www.encodeproject.org/files/ENCFF136BEY/@@download/ENCFF136BEY.bed.gz hg19 released low read length, mild to moderate bottlenecking biological replicates with identical biosample missing control alignments ENCFF468XWV bed narrowPeak optimal idr thresholded peaks ENCSR219MKK ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens DEK-human DNA False 2016-04-21 ENCODE 1, 2 ENCFF001TDO, ENCFF304NNT, ENCFF695MQI, ENCFF817LEL 149183 ENCODE Processing Pipeline 7c98bb198aa82c6c11d730914dbc2c6b https://www.encodeproject.org/files/ENCFF468XWV/@@download/ENCFF468XWV.bed.gz hg19 released low read length, low read depth ENCFF649EXL bed narrowPeak optimal idr thresholded peaks ENCSR194KWL ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF704-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF004ODG, ENCFF192IER, ENCFF533FEP 37972 ENCODE Processing Pipeline fde331a7d8add9af71f5ad9e761d84e3 https://www.encodeproject.org/files/ENCFF649EXL/@@download/ENCFF649EXL.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF015JYB bed narrowPeak optimal idr thresholded peaks ENCSR776MDR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF577-human DNA formaldehyde False 2018-01-29 ENCODE 1, 2 ENCFF001TDO, ENCFF014UVA, ENCFF047EYM, ENCFF186ZMA 245416 ENCODE Processing Pipeline f95859db9bc5562536d54bcc8c08e7b0 https://www.encodeproject.org/files/ENCFF015JYB/@@download/ENCFF015JYB.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF527ALV bed narrowPeak optimal idr thresholded peaks ENCSR391KQC ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MTA3-human DNA False 2016-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF257ALC, ENCFF402AKR, ENCFF434NPI 78206 ENCODE Processing Pipeline cb10f87e27dba429bc70867de4e6c85a https://www.encodeproject.org/files/ENCFF527ALV/@@download/ENCFF527ALV.bed.gz hg19 released borderline replicate concordance ENCFF491HFW bed narrowPeak optimal idr thresholded peaks ENCSR705ASR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZSCAN23-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF497XPK, ENCFF501HHH, ENCFF744ESZ 174579 ENCODE Processing Pipeline 5c3fe57f016c003f636ddcb5bc2875c1 https://www.encodeproject.org/files/ENCFF491HFW/@@download/ENCFF491HFW.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF116RLU bed narrowPeak optimal idr thresholded peaks ENCSR000HPG ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens SMC3-human DNA False 2016-10-26 ENCODE 1, 3 ENCFF001TDO, ENCFF551KOG, ENCFF603HVK, ENCFF925XIR 561934 ENCODE Processing Pipeline df3a18ae7973dc03e024e724ccaf3c13 https://www.encodeproject.org/files/ENCFF116RLU/@@download/ENCFF116RLU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption ENCFF119WLE bed narrowPeak optimal idr thresholded peaks ENCSR468IJT ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-SP7-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF154VUH, ENCFF785OWU, ENCFF993SLF 923539 ENCODE Processing Pipeline 2c945f3726c417de80e3e44cffdf0605 https://www.encodeproject.org/files/ENCFF119WLE/@@download/ENCFF119WLE.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF308ZGG bed narrowPeak optimal idr thresholded peaks ENCSR009MBP ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens HSF1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF421XER, ENCFF607QZV, ENCFF618CLL 47623 ENCODE Processing Pipeline 855faa28674750c111acec0d56d5d750 https://www.encodeproject.org/files/ENCFF308ZGG/@@download/ENCFF308ZGG.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF174VIF bed narrowPeak optimal idr thresholded peaks ENCSR328SUD ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF335-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF115IZR, ENCFF330HUW, ENCFF890YMI 1289234 ENCODE Processing Pipeline 420b9caf12bb46bb780131f1fd9da63a https://www.encodeproject.org/files/ENCFF174VIF/@@download/ENCFF174VIF.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF002CSK bed narrowPeak optimal idr thresholded peaks ENCSR000EVI ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens ELK4-human DNA see document see document False 2011-10-29 ENCODE 135202 ENCODE Consortium Analysis Working Group 5b840f06ad48a31dffba2764ce3f40ec https://www.encodeproject.org/files/ENCFF002CSK/@@download/ENCFF002CSK.bed.gz hg19 released inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF649JWU bed narrowPeak optimal idr thresholded peaks ENCSR535DIA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-GLIS2-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF778AIS, ENCFF931VDE, ENCFF943SEQ 734619 ENCODE Processing Pipeline 0e238560200e61dd9bd47322119610d9 https://www.encodeproject.org/files/ENCFF649JWU/@@download/ENCFF649JWU.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF397XTF bed narrowPeak optimal idr thresholded peaks ENCSR318LVG ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZBTB40-human DNA False 2016-09-20 ENCODE 1, 2 ENCFF001TDO, ENCFF086HCP, ENCFF511ZHC, ENCFF685HYH 275891 ENCODE Processing Pipeline a71767d139b97728bef6593298a3d875 https://www.encodeproject.org/files/ENCFF397XTF/@@download/ENCFF397XTF.bed.gz hg19 released file validation error, mild to moderate bottlenecking mismatched file status ENCFF164HLQ bed narrowPeak optimal idr thresholded peaks ENCSR474CVP ChIP-seq EFO:0002067 K562 cell line Homo sapiens TRIM28-human DNA False 2017-11-14 ENCODE 1, 3 ENCFF001TDO, ENCFF021ITV, ENCFF481CBF, ENCFF774YSI 350042 ENCODE Processing Pipeline 1b273fe39996dc7dc244c82058a4a083 https://www.encodeproject.org/files/ENCFF164HLQ/@@download/ENCFF164HLQ.bed.gz hg19 released experiment not submitted to GEO ENCFF208TRU bed narrowPeak optimal idr thresholded peaks ENCSR514VAY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens HCFC1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF251KCB, ENCFF567MQM, ENCFF894EBL 167235 ENCODE Processing Pipeline b6b7a380d838641fb514a9c1fd6b89e3 https://www.encodeproject.org/files/ENCFF208TRU/@@download/ENCFF208TRU.bed.gz hg19 released low read length ENCFF895YBG bed narrowPeak optimal idr thresholded peaks ENCSR514VAY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens HCFC1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF620ZVU, ENCFF750GSF, ENCFF807ESQ 144516 ENCODE Processing Pipeline c72d579bd05ba4d5ba639a7d22b58cb4 https://www.encodeproject.org/files/ENCFF895YBG/@@download/ENCFF895YBG.bed.gz hg19 archived low read length ENCFF054LVE bed narrowPeak optimal idr thresholded peaks ENCSR946ZLI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-KLF13-human DNA formaldehyde False 2017-11-30 ENCODE 1, 2 ENCFF001TDO, ENCFF468YQB, ENCFF495ICA, ENCFF742QVY 181804 ENCODE Processing Pipeline 5bc33b794fbae98252426d8ca90bfad6 https://www.encodeproject.org/files/ENCFF054LVE/@@download/ENCFF054LVE.bed.gz hg19 released low read depth, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF683KBO bed narrowPeak optimal idr thresholded peaks ENCSR066EBK ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXA2-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF144UTI, ENCFF516CRP, ENCFF532LNM 1245223 ENCODE Processing Pipeline cc14e80a87319acc940932944771f108 https://www.encodeproject.org/files/ENCFF683KBO/@@download/ENCFF683KBO.bed.gz hg19 released ENCFF484HCG bed narrowPeak optimal idr thresholded peaks ENCSR894CGX ChIP-seq EFO:0002067 K562 cell line Homo sapiens SUPT5H-human DNA False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF452CEM, ENCFF548OKF, ENCFF902RHR 545686 ENCODE Processing Pipeline edb704f30f5be1dd1284828f92f6a8ed https://www.encodeproject.org/files/ENCFF484HCG/@@download/ENCFF484HCG.bed.gz hg19 released ENCFF502ZTC bed narrowPeak optimal idr thresholded peaks ENCSR047BUZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ATF2-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF474JRH, ENCFF731IFM, ENCFF750HPK 1135631 ENCODE Processing Pipeline a6a22b8d5cf6d58a3a27d3b0952f7874 https://www.encodeproject.org/files/ENCFF502ZTC/@@download/ENCFF502ZTC.bed.gz hg19 released borderline replicate concordance ENCFF996RRT bed narrowPeak optimal idr thresholded peaks ENCSR391IWM ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens KDM1A-human DNA False 2016-11-24 ENCODE 1, 2 ENCFF001TDO, ENCFF040IUQ, ENCFF385GVM, ENCFF387DEN 7786 ENCODE Processing Pipeline c0c13bfd576a47fb42d39c92e9b7f9ea https://www.encodeproject.org/files/ENCFF996RRT/@@download/ENCFF996RRT.bed.gz hg19 released borderline replicate concordance ENCFF002CIL bed narrowPeak optimal idr thresholded peaks ENCSR000BKJ ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 280169 ENCODE Consortium Analysis Working Group 35a74f652ae357485e259fe640f840b9 https://www.encodeproject.org/files/ENCFF002CIL/@@download/ENCFF002CIL.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF081JNO bed narrowPeak optimal idr thresholded peaks ENCSR000BKJ ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF505NSP, ENCFF519AMH, ENCFF994XKT 295188 ENCODE Processing Pipeline abed55987806d18a1d2d5f121536c7ac https://www.encodeproject.org/files/ENCFF081JNO/@@download/ENCFF081JNO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF126PJF bed narrowPeak optimal idr thresholded peaks ENCSR155VDK ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZBTB11-human DNA False 2016-04-25 ENCODE 1, 2 ENCFF001TDO, ENCFF224PZN, ENCFF321JQC, ENCFF627DPA 42359 ENCODE Processing Pipeline 1cbb892e070ba237950c699124a9f18a https://www.encodeproject.org/files/ENCFF126PJF/@@download/ENCFF126PJF.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption ENCFF708OJJ bed narrowPeak optimal idr thresholded peaks ENCSR887MXT ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens ZHX1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF436EXX, ENCFF695CJR, ENCFF698USR 60464 ENCODE Processing Pipeline 1da1a1c1a4cddbaa11dbd4fb1ae9a963 https://www.encodeproject.org/files/ENCFF708OJJ/@@download/ENCFF708OJJ.bed.gz hg19 released low read length, borderline replicate concordance, low read depth ENCFF096MYK bed narrowPeak optimal idr thresholded peaks ENCSR887MXT ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens ZHX1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF059MAJ, ENCFF566ZXA, ENCFF738BNS 53021 ENCODE Processing Pipeline 9347d93c203883defa053592284c995e https://www.encodeproject.org/files/ENCFF096MYK/@@download/ENCFF096MYK.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth ENCFF002CJN bed narrowPeak optimal idr thresholded peaks ENCSR000BIV ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SRF-human DNA see document see document False 2011-07-18 ENCODE 103006 ENCODE Consortium Analysis Working Group a5858b2044edbdf6772f3c51c1a42214 https://www.encodeproject.org/files/ENCFF002CJN/@@download/ENCFF002CJN.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF725LDD bed narrowPeak optimal idr thresholded peaks ENCSR000BIV ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SRF-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF145RHD, ENCFF471LWP, ENCFF605EQP 99200 ENCODE Processing Pipeline 9650ba5ad4127ecca39d1e2d2efc50e9 https://www.encodeproject.org/files/ENCFF725LDD/@@download/ENCFF725LDD.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF086LMU bed narrowPeak optimal idr thresholded peaks ENCSR771GTF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SUZ12-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF186LIR, ENCFF381HBX, ENCFF558TFD 37524 ENCODE Processing Pipeline 749996d8fe43925ce133918d367e2c7b https://www.encodeproject.org/files/ENCFF086LMU/@@download/ENCFF086LMU.bed.gz hg19 released low read length, low read depth ENCFF473GYY bed narrowPeak optimal idr thresholded peaks ENCSR771GTF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SUZ12-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF098TYI, ENCFF198VHZ, ENCFF514KJW 35910 ENCODE Processing Pipeline f030589351c1aeb6a6cfa232f7e10259 https://www.encodeproject.org/files/ENCFF473GYY/@@download/ENCFF473GYY.bed.gz hg19 archived low read length, low read depth ENCFF242VUO bed narrowPeak optimal idr thresholded peaks ENCSR199WXF ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EED-human DNA False 2016-03-30 ENCODE 1, 2 ENCFF001TDO, ENCFF050FWJ, ENCFF254LCG, ENCFF327ANX 592515 ENCODE Processing Pipeline ffafc1a8641763eab50f8a610d2a523f https://www.encodeproject.org/files/ENCFF242VUO/@@download/ENCFF242VUO.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF712LMP bed narrowPeak optimal idr thresholded peaks ENCSR707IUN ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens NFE2L2-human DNA False 2016-08-31 ENCODE 1, 2 ENCFF001TDO, ENCFF249ESZ, ENCFF445YDK, ENCFF737CTQ 138212 ENCODE Processing Pipeline 71a63bdc531b0c8197e1fc6c7d385ab9 https://www.encodeproject.org/files/ENCFF712LMP/@@download/ENCFF712LMP.bed.gz hg19 released low read length, low read depth ENCFF266KSD bed narrowPeak optimal idr thresholded peaks ENCSR752NDX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZNF282-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF165DIG, ENCFF313GGY, ENCFF719GJP 40174 ENCODE Processing Pipeline 166fa526550204b365512e1d5ada00c2 https://www.encodeproject.org/files/ENCFF266KSD/@@download/ENCFF266KSD.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF002COQ bed narrowPeak optimal idr thresholded peaks ENCSR000DZN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CTCF-human DNA see document see document False 2011-10-29 ENCODE 1184123 ENCODE Consortium Analysis Working Group bc28241ebe7f2e85f79563568ea724dc https://www.encodeproject.org/files/ENCFF002COQ/@@download/ENCFF002COQ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample control insufficient read depth, insufficient read depth ENCFF710VEH bed narrowPeak optimal idr thresholded peaks ENCSR000DZN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CTCF-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF256QBB, ENCFF307KRD, ENCFF833GQU 702399 ENCODE Processing Pipeline cc13297e7415d8e276f3516031835828 https://www.encodeproject.org/files/ENCFF710VEH/@@download/ENCFF710VEH.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample control insufficient read depth, insufficient read depth ENCFF928KZS bed narrowPeak optimal idr thresholded peaks ENCSR801GJU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CBX2-human DNA False 2018-02-26 ENCODE 1, 2 ENCFF001TDO, ENCFF035VDP, ENCFF431PAS, ENCFF503JVU 51092 ENCODE Processing Pipeline 097d1fa94b67b08eca336ee237fd9e9e https://www.encodeproject.org/files/ENCFF928KZS/@@download/ENCFF928KZS.bed.gz hg19 released low read length, borderline replicate concordance, low read depth experiment not submitted to GEO ENCFF168HAG bed narrowPeak optimal idr thresholded peaks ENCSR263DFP ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-PBX2-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF075DYV, ENCFF475TJT, ENCFF869BQK 640919 ENCODE Processing Pipeline 2b8f415d6a0349fdfc57e3b592874f6a https://www.encodeproject.org/files/ENCFF168HAG/@@download/ENCFF168HAG.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization ENCFF549GMO bed narrowPeak optimal idr thresholded peaks ENCSR223MLH ChIP-seq EFO:0002067 K562 cell line Homo sapiens BRCA1-human DNA False 2017-05-18 ENCODE 1, 2 ENCFF001TDO, ENCFF248TTW, ENCFF302RJE, ENCFF507JPU 18922 ENCODE Processing Pipeline df978590cd462b0053dd3bfc64f17142 https://www.encodeproject.org/files/ENCFF549GMO/@@download/ENCFF549GMO.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF292QIG bed narrowPeak optimal idr thresholded peaks ENCSR892QHR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-PRDM6-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF251WTV, ENCFF735AUV, ENCFF834EJV 850440 ENCODE Processing Pipeline a6fd0350a29c5772ed0f48223a09bd18 https://www.encodeproject.org/files/ENCFF292QIG/@@download/ENCFF292QIG.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF355ARZ bed narrowPeak optimal idr thresholded peaks ENCSR523XCR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RNF2-human DNA False 2016-06-23 ENCODE 1, 3 ENCFF001TDO, ENCFF003FGN, ENCFF387MBI, ENCFF868YQL 225454 ENCODE Processing Pipeline 01286b656bb017488d7534dbd33305da https://www.encodeproject.org/files/ENCFF355ARZ/@@download/ENCFF355ARZ.bed.gz hg19 released low read depth ENCFF065QOM bed narrowPeak optimal idr thresholded peaks ENCSR075FNZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF622-human DNA False 2017-11-13 ENCODE 1, 3 ENCFF001TDO, ENCFF059KWF, ENCFF133NZE, ENCFF222SAV 4790 ENCODE Processing Pipeline 233897215cc75699bd30006f3cd5c2d2 https://www.encodeproject.org/files/ENCFF065QOM/@@download/ENCFF065QOM.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms experiment not submitted to GEO ENCFF261XPP bed narrowPeak optimal idr thresholded peaks ENCSR033VAZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens TARDBP-human DNA False 2016-04-22 ENCODE 2, 3 ENCFF001TDO, ENCFF506ZBZ, ENCFF612BYB, ENCFF654INX 242184 ENCODE Processing Pipeline ac65d03826f780526495ec873aa0d673 https://www.encodeproject.org/files/ENCFF261XPP/@@download/ENCFF261XPP.bed.gz hg19 released ENCFF603MCO bed narrowPeak optimal idr thresholded peaks ENCSR000BTF ChIP-seq EFO:0002793 HL-60 cell line Homo sapiens REST-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF152FPH, ENCFF427PNP, ENCFF955CMQ 250253 ENCODE Processing Pipeline bd65a9b594a044fa6e72d0baca077e59 https://www.encodeproject.org/files/ENCFF603MCO/@@download/ENCFF603MCO.bed.gz hg19 released low read depth biological replicates with identical biosample insufficient replicate concordance ENCFF750YHY bed narrowPeak optimal idr thresholded peaks ENCSR445PDR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-GFI1B-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF319WWL, ENCFF634MHV, ENCFF707USK 204995 ENCODE Processing Pipeline f25c95750558fdd7c6325d7258eb364a https://www.encodeproject.org/files/ENCFF750YHY/@@download/ENCFF750YHY.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF002DBV bed narrowPeak optimal idr thresholded peaks ENCSR000DPG ChIP-seq NTR:0000478 AG04449 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001GVW, ENCFF001GWC 1114889 ENCODE Consortium Analysis Working Group bbcd22b3a0bf72a88a2c3406a71386c6 https://www.encodeproject.org/files/ENCFF002DBV/@@download/ENCFF002DBV.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity NTR biosample insufficient read depth missing control alignments ENCFF970AVM bed narrowPeak optimal idr thresholded peaks ENCSR000DPG ChIP-seq NTR:0000478 AG04449 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF252SGK, ENCFF671VPQ, ENCFF738FKM 774670 ENCODE Processing Pipeline f04834aa1a9828e037a2d125449602be https://www.encodeproject.org/files/ENCFF970AVM/@@download/ENCFF970AVM.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity NTR biosample insufficient read depth missing control alignments ENCFF191MPD bed narrowPeak optimal idr thresholded peaks ENCSR920BLG ChIP-seq EFO:0002067 K562 cell line Homo sapiens SIN3A-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF718AFD, ENCFF791GAM, ENCFF877VHC 209919 ENCODE Processing Pipeline 73ff664a4d223fafe5f230e633552942 https://www.encodeproject.org/files/ENCFF191MPD/@@download/ENCFF191MPD.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity ENCFF589EVD bed narrowPeak optimal idr thresholded peaks ENCSR283ZNI ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBTB8A-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF020AOB, ENCFF400SXR, ENCFF814OZQ 19154 ENCODE Processing Pipeline ec744580c8d5e3a55f5e1cc70aa5970c https://www.encodeproject.org/files/ENCFF589EVD/@@download/ENCFF589EVD.bed.gz hg19 released file validation error, mild to moderate bottlenecking, moderate library complexity mismatched file status, experiment not submitted to GEO partially characterized antibody ENCFF701NVT bed narrowPeak optimal idr thresholded peaks ENCSR931HNY ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOA1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF428HHR, ENCFF633IWB, ENCFF786SHU 243759 ENCODE Processing Pipeline 2d4ce296af6dc930e1ec43681398c171 https://www.encodeproject.org/files/ENCFF701NVT/@@download/ENCFF701NVT.bed.gz hg19 released low read depth ENCFF925MHB bed narrowPeak optimal idr thresholded peaks ENCSR618GDK ChIP-seq EFO:0002067 K562 cell line Homo sapiens CEBPZ-human DNA False 2014-07-07 ENCODE 1, 4 ENCFF001TDO, ENCFF355FJN, ENCFF830WTR, ENCFF895ZCE 24634 ENCODE Processing Pipeline 883e9c0b1e68c25bad97a58920ac3f58 https://www.encodeproject.org/files/ENCFF925MHB/@@download/ENCFF925MHB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF392TKK bed narrowPeak optimal idr thresholded peaks ENCSR618GDK ChIP-seq EFO:0002067 K562 cell line Homo sapiens CEBPZ-human DNA False 2014-07-07 ENCODE 1, 4 ENCFF001TDO, ENCFF196NEV, ENCFF603ABN, ENCFF671UIB 21050 ENCODE Processing Pipeline c3bda9e03d77f48fd2712a1af5c26a09 https://www.encodeproject.org/files/ENCFF392TKK/@@download/ENCFF392TKK.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF694BIA bed narrowPeak optimal idr thresholded peaks ENCSR948KMB ChIP-seq EFO:0002067 K562 cell line Homo sapiens PTBP1-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF479MVC, ENCFF882YQN, ENCFF921LEX 86416 ENCODE Processing Pipeline 72a8e93e6ddf058b52d390f325564e50 https://www.encodeproject.org/files/ENCFF694BIA/@@download/ENCFF694BIA.bed.gz hg19 released low read length, low read depth missing control alignments ENCFF026FRV bed narrowPeak optimal idr thresholded peaks ENCSR679STZ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF792-human DNA formaldehyde False 2016-11-02 ENCODE 1, 2 ENCFF001TDO, ENCFF088NTX, ENCFF630COY, ENCFF790HUQ 110500 ENCODE Processing Pipeline 4deb8ee86eafa2b3832894a13c4b552a https://www.encodeproject.org/files/ENCFF026FRV/@@download/ENCFF026FRV.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF120RXH bed narrowPeak optimal idr thresholded peaks ENCSR892ZTO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF548-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF399MQT, ENCFF644IGZ, ENCFF687KKC 71130 ENCODE Processing Pipeline 1670e6c66f439c2af2a90d78663ba775 https://www.encodeproject.org/files/ENCFF120RXH/@@download/ENCFF120RXH.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF479TZM bed narrowPeak optimal idr thresholded peaks ENCSR696MBC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SRSF4-human DNA SDS formaldehyde False 2018-01-19 ENCODE 1, 2 ENCFF001TDO, ENCFF214BMQ, ENCFF553DKF, ENCFF657EZC 48044 ENCODE Processing Pipeline a494e610082b66d08df0c8b2de1c97df https://www.encodeproject.org/files/ENCFF479TZM/@@download/ENCFF479TZM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF033FOE bed narrowPeak optimal idr thresholded peaks ENCSR289NSN ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF354C-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF488WTH, ENCFF510LBP, ENCFF681SXI 31576 ENCODE Processing Pipeline 69cee260dfe98c253f4145779fe84809 https://www.encodeproject.org/files/ENCFF033FOE/@@download/ENCFF033FOE.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization missing control alignments ENCFF765BRD bed narrowPeak optimal idr thresholded peaks ENCSR987GXT ChIP-seq EFO:0007950 GM23338 induced pluripotent stem cell line Homo sapiens CTCF-human DNA False 2017-10-19 ENCODE 1, 2 ENCFF001TDO, ENCFF214JLG, ENCFF236MQY, ENCFF651CJJ 1262132 ENCODE Processing Pipeline 5910eb61c8a1c3124666845d4245da27 https://www.encodeproject.org/files/ENCFF765BRD/@@download/ENCFF765BRD.bed.gz hg19 released mild to moderate bottlenecking, low read depth, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF545SXB bed narrowPeak optimal idr thresholded peaks ENCSR778QLY ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens ELF4-human DNA False 2017-01-31 ENCODE 1, 2 ENCFF001TDO, ENCFF280LRQ, ENCFF480NXP, ENCFF802MVF 118104 ENCODE Processing Pipeline 2a018e52c7336d6fcce93715a481d388 https://www.encodeproject.org/files/ENCFF545SXB/@@download/ENCFF545SXB.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption ENCFF002CSI bed narrowPeak optimal idr thresholded peaks ENCSR000EVK ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens E2F6-human DNA see document see document False 2011-10-29 ENCODE 117604 ENCODE Consortium Analysis Working Group 768813aca230dfe904b00a36c6cffdcd https://www.encodeproject.org/files/ENCFF002CSI/@@download/ENCFF002CSI.bed.gz hg19 released inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF030BPR bed narrowPeak optimal idr thresholded peaks ENCSR857PBV ChIP-seq EFO:0002095 22Rv1 cell line Homo sapiens CTCF-human DNA False 2017-06-15 ENCODE 1, 2 ENCFF001TDO, ENCFF144QCV, ENCFF615UXP, ENCFF887CGM 1588398 ENCODE Processing Pipeline 5f43fb71d39e6aca7ccb6aef19451ff0 https://www.encodeproject.org/files/ENCFF030BPR/@@download/ENCFF030BPR.bed.gz hg19 released mild to moderate bottlenecking NTR biosample ENCFF114PTZ bed narrowPeak optimal idr thresholded peaks ENCSR519WMW ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMARCC2-human DNA False 2017-12-04 ENCODE 1, 3 ENCFF001TDO, ENCFF036DTR, ENCFF620PQN, ENCFF947YAZ 353101 ENCODE Processing Pipeline bddebec1817eff40e35f0cfe74a9ff7a https://www.encodeproject.org/files/ENCFF114PTZ/@@download/ENCFF114PTZ.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption experiment not submitted to GEO ENCFF510UBQ bed narrowPeak optimal idr thresholded peaks ENCSR867WPH ChIP-seq UBERON:0002107 liver tissue Homo sapiens REST-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF034ALK, ENCFF501HAG, ENCFF783JKF 638782 ENCODE Processing Pipeline 047d4008e34b135f96b20243b80c4441 https://www.encodeproject.org/files/ENCFF510UBQ/@@download/ENCFF510UBQ.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample ENCFF417LEJ bed narrowPeak optimal idr thresholded peaks ENCSR237VLT ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBTB40-human DNA False 2016-08-01 ENCODE 1, 2 ENCFF001TDO, ENCFF361LXO, ENCFF707CDO, ENCFF727WJU 563762 ENCODE Processing Pipeline ee5c6e2a9253142ea4ec418a2668994d https://www.encodeproject.org/files/ENCFF417LEJ/@@download/ENCFF417LEJ.bed.gz hg19 released ENCFF433BDE bed narrowPeak optimal idr thresholded peaks ENCSR673SGK ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-BCL6B-human DNA formaldehyde False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF751TVZ, ENCFF809YZM, ENCFF996FQE 187274 ENCODE Processing Pipeline a0136a7c1acaf6c76682617c011d4bd3 https://www.encodeproject.org/files/ENCFF433BDE/@@download/ENCFF433BDE.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF932EVL bed narrowPeak optimal idr thresholded peaks ENCSR831EIW ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens FOXM1-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF141MCC, ENCFF618BDU, ENCFF644PFR 102472 ENCODE Processing Pipeline 8324015652ce03e8a0be6cd9278a3f2a https://www.encodeproject.org/files/ENCFF932EVL/@@download/ENCFF932EVL.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF346OZB bed narrowPeak optimal idr thresholded peaks ENCSR761LRR ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF512B-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF030NPV, ENCFF244DVA, ENCFF404MUH 129498 ENCODE Processing Pipeline 2c671cff1296f8ceb47fd8972b5262bf https://www.encodeproject.org/files/ENCFF346OZB/@@download/ENCFF346OZB.bed.gz hg19 released antibody characterized with exemption ENCFF002CLB bed narrowPeak optimal idr thresholded peaks ENCSR000BJX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SP1-human DNA see document see document False 2011-07-18 ENCODE 623335 ENCODE Consortium Analysis Working Group 376cdc1b9880f92085b220e94c996ae8 https://www.encodeproject.org/files/ENCFF002CLB/@@download/ENCFF002CLB.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample insufficient replicate concordance missing control alignments ENCFF741WKY bed narrowPeak optimal idr thresholded peaks ENCSR000BJX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SP1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF121SXP, ENCFF420CVJ, ENCFF740QPT 593220 ENCODE Processing Pipeline 637ee87b99d565855508c0e4d6d3c2d8 https://www.encodeproject.org/files/ENCFF741WKY/@@download/ENCFF741WKY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient replicate concordance missing control alignments ENCFF233MID bed narrowPeak optimal idr thresholded peaks ENCSR315JJE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNRNPL-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF158VHL, ENCFF834INF, ENCFF966PVP 404602 ENCODE Processing Pipeline 1000e5ae167a7e197f2dbedbfc166b4b https://www.encodeproject.org/files/ENCFF233MID/@@download/ENCFF233MID.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF883CDF bed narrowPeak optimal idr thresholded peaks ENCSR804HMZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNRNPLL-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF252CYF, ENCFF482ZCR, ENCFF483RRM 472671 ENCODE Processing Pipeline 0a8d51d05c44c4ec3e4ed88778b5f075 https://www.encodeproject.org/files/ENCFF883CDF/@@download/ENCFF883CDF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF002CIK bed narrowPeak optimal idr thresholded peaks ENCSR000BIM ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 303968 ENCODE Consortium Analysis Working Group 7ab7ce6c64786d76a1fbf4222d0258a5 https://www.encodeproject.org/files/ENCFF002CIK/@@download/ENCFF002CIK.bed.gz hg19 archived control low read depth, low read length, low read depth biological replicates with identical biosample, missing derived_from missing control alignments ENCFF195IKR bed narrowPeak optimal idr thresholded peaks ENCSR000BIM ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF257RXE, ENCFF893QMD, ENCFF994IJB 269898 ENCODE Processing Pipeline ff7eec22f7f6ea26a65ebf19c5976fda https://www.encodeproject.org/files/ENCFF195IKR/@@download/ENCFF195IKR.bed.gz hg19 released control low read depth, low read length, low read depth biological replicates with identical biosample missing control alignments ENCFF993GXU bed narrowPeak optimal idr thresholded peaks ENCSR697YLJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens CBFA2T3-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF120JHT, ENCFF854ZPL, ENCFF885YBC 940121 ENCODE Processing Pipeline 158d4fa23243d6d4e9f368b4106740cd https://www.encodeproject.org/files/ENCFF993GXU/@@download/ENCFF993GXU.bed.gz hg19 released ENCFF209HKW bed narrowPeak optimal idr thresholded peaks ENCSR718SDE ChIP-seq EFO:0002067 K562 cell line Homo sapiens RLF-human DNA False 2018-01-26 ENCODE 2, 3 ENCFF001TDO, ENCFF085CGF, ENCFF563QBT, ENCFF772ITA 200581 ENCODE Processing Pipeline 0715e48bb3bd6c77a51ee4cda8cb0a97 https://www.encodeproject.org/files/ENCFF209HKW/@@download/ENCFF209HKW.bed.gz hg19 released low read depth experiment not submitted to GEO partially characterized antibody ENCFF002CNY bed narrowPeak optimal idr thresholded peaks ENCSR000BMX ChIP-seq EFO:0001247 T47D cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour GATA3-human DNA see document see document False 2011-07-18 ENCODE 712565 ENCODE Consortium Analysis Working Group 7e078e18057c41e9e2ed711465c152ab https://www.encodeproject.org/files/ENCFF002CNY/@@download/ENCFF002CNY.bed.gz hg19 archived low read length missing derived_from, biological replicates with identical biosample ENCFF058XAD bed narrowPeak optimal idr thresholded peaks ENCSR000BMX ChIP-seq EFO:0001247 T47D cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour GATA3-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF368ICR, ENCFF370FVF, ENCFF591LXN 775431 ENCODE Processing Pipeline 0698eb75edf612f795a48307b318d11f https://www.encodeproject.org/files/ENCFF058XAD/@@download/ENCFF058XAD.bed.gz hg19 released low read length biological replicates with identical biosample ENCFF391UDD bed narrowPeak optimal idr thresholded peaks ENCSR715UCI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-SOX13-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF424PAM, ENCFF521SLC, ENCFF614RLB 816365 ENCODE Processing Pipeline b74563c89c8616c01d6853624ca6f8a2 https://www.encodeproject.org/files/ENCFF391UDD/@@download/ENCFF391UDD.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CEP bed narrowPeak optimal idr thresholded peaks ENCSR000ATJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC6-human DNA see document see document False 2012-08-06 ENCODE 28146 ENCODE Consortium Analysis Working Group 13bd20b1e3ab003e3db4cdced8b95873 https://www.encodeproject.org/files/ENCFF002CEP/@@download/ENCFF002CEP.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing derived_from insufficient read depth ENCFF998HOR bed narrowPeak optimal idr thresholded peaks ENCSR000ATJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC6-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF322OPC, ENCFF676RZD, ENCFF996VOF 33412 ENCODE Processing Pipeline 7ae9a8cbf62137818bd83b824a2f16a5 https://www.encodeproject.org/files/ENCFF998HOR/@@download/ENCFF998HOR.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth insufficient read depth ENCFF002CKC bed narrowPeak optimal idr thresholded peaks ENCSR000BID ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens BHLHE40-human DNA see document see document False 2011-07-18 ENCODE 72384 ENCODE Consortium Analysis Working Group 2919a05ba376b3d50530b2800affd7b1 https://www.encodeproject.org/files/ENCFF002CKC/@@download/ENCFF002CKC.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample insufficient read depth, poor library complexity, severe bottlenecking missing control alignments ENCFF028BDC bed narrowPeak optimal idr thresholded peaks ENCSR000BID ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens BHLHE40-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF215GXO, ENCFF333ZRM, ENCFF626BVG 61955 ENCODE Processing Pipeline a5acbe34ad3e7ba0f7923a00120943fc https://www.encodeproject.org/files/ENCFF028BDC/@@download/ENCFF028BDC.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth, poor library complexity, severe bottlenecking missing control alignments ENCFF002CJG bed narrowPeak optimal idr thresholded peaks ENCSR000BLD ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RAD21-human DNA see document see document False 2011-07-18 ENCODE 1681653 ENCODE Consortium Analysis Working Group 5430340eb9fc27a77685a961af585d94 https://www.encodeproject.org/files/ENCFF002CJG/@@download/ENCFF002CJG.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity biological replicates with identical biosample, missing derived_from missing control alignments ENCFF824FIL bed narrowPeak optimal idr thresholded peaks ENCSR000BLD ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RAD21-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF216OCU, ENCFF428PSB, ENCFF474BFW 1187834 ENCODE Processing Pipeline 23e386dd5736b37be6fee217c9b4406b https://www.encodeproject.org/files/ENCFF824FIL/@@download/ENCFF824FIL.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity biological replicates with identical biosample missing control alignments ENCFF253FZN bed narrowPeak optimal idr thresholded peaks ENCSR160QYK ChIP-seq EFO:0002067 K562 cell line Homo sapiens GATAD2A-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF091SVZ, ENCFF618ORM, ENCFF797ZNP 283170 ENCODE Processing Pipeline 3cc7e08b654255b1a17d4805f8bf51d1 https://www.encodeproject.org/files/ENCFF253FZN/@@download/ENCFF253FZN.bed.gz hg19 released ENCFF303TVZ bed narrowPeak optimal idr thresholded peaks ENCSR000DZX ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IRF3-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF271PVK, ENCFF434CQV, ENCFF678BIU 36479 ENCODE Processing Pipeline 814f0bb635cc8a5600eb2018921ab663 https://www.encodeproject.org/files/ENCFF303TVZ/@@download/ENCFF303TVZ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample ENCFF784FIE bed narrowPeak optimal idr thresholded peaks ENCSR325DER ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR3C1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF037BJD, ENCFF261TNJ, ENCFF793DLG 46890 ENCODE Processing Pipeline 27585931a99c4d1c463cb076f662bc3b https://www.encodeproject.org/files/ENCFF784FIE/@@download/ENCFF784FIE.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF184RRU bed narrowPeak optimal idr thresholded peaks ENCSR670FDA ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFATC3-human DNA False 2017-09-29 ENCODE 1, 2 ENCFF001TDO, ENCFF324WHA, ENCFF620EBO, ENCFF951XWI 133041 ENCODE Processing Pipeline 3ae96e984e743858b619938ccc58a435 https://www.encodeproject.org/files/ENCFF184RRU/@@download/ENCFF184RRU.bed.gz hg19 released mild to moderate bottlenecking ENCFF558JBX bed narrowPeak optimal idr thresholded peaks ENCSR024CNP ChIP-seq EFO:0002067 K562 cell line Homo sapiens EGR1-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF255VCC, ENCFF637AOG, ENCFF782FAJ 605717 ENCODE Processing Pipeline 8149a5a796a465fc5a678edf965522ce https://www.encodeproject.org/files/ENCFF558JBX/@@download/ENCFF558JBX.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF002CIZ bed narrowPeak optimal idr thresholded peaks ENCSR000BKP ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens JUND-human DNA see document see document False 2011-07-18 ENCODE 164218 ENCODE Consortium Analysis Working Group 1c0e5f009a39b207e74f525bcfd58e35 https://www.encodeproject.org/files/ENCFF002CIZ/@@download/ENCFF002CIZ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent platforms missing derived_from, biological replicates with identical biosample poor library complexity, severe bottlenecking ENCFF073PCP bed narrowPeak optimal idr thresholded peaks ENCSR000BKP ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens JUND-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF041GFP, ENCFF686SJD, ENCFF905FMJ 258230 ENCODE Processing Pipeline 009fcd86b3b4d6d1e42350f2b7f87273 https://www.encodeproject.org/files/ENCFF073PCP/@@download/ENCFF073PCP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample poor library complexity, severe bottlenecking ENCFF572DQF bed narrowPeak optimal idr thresholded peaks ENCSR022IZK ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF623-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF625RGX, ENCFF824LLG, ENCFF907ZCD 265859 ENCODE Processing Pipeline 37d603e6d679fdb2bc9c6a984d07d2ac https://www.encodeproject.org/files/ENCFF572DQF/@@download/ENCFF572DQF.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF002CTN bed narrowPeak optimal idr thresholded peaks ENCSR000ECW ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens USF2-human DNA see document see document False 2011-10-29 ENCODE 311276 ENCODE Consortium Analysis Working Group 333a8fbc667b992f645fbede4a5501c8 https://www.encodeproject.org/files/ENCFF002CTN/@@download/ENCFF002CTN.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF682SIY bed narrowPeak optimal idr thresholded peaks ENCSR423FCW ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBM14-human DNA SDS formaldehyde False 2018-01-22 ENCODE 1, 2 ENCFF001TDO, ENCFF713DPH, ENCFF730DRK, ENCFF871OPM 47832 ENCODE Processing Pipeline 5152e507af06d10f533a3a84de25302f https://www.encodeproject.org/files/ENCFF682SIY/@@download/ENCFF682SIY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity experiment not submitted to GEO insufficient read depth missing control alignments ENCFF881XQF bed narrowPeak optimal idr thresholded peaks ENCSR603REQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens PCBP2-human DNA SDS formaldehyde False 2018-01-16 ENCODE 1, 2 ENCFF001TDO, ENCFF016WHL, ENCFF467EXO, ENCFF554MYS 47460 ENCODE Processing Pipeline 3ba52950fce22dbd107dae09bd3ed496 https://www.encodeproject.org/files/ENCFF881XQF/@@download/ENCFF881XQF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF350YXB bed narrowPeak optimal idr thresholded peaks ENCSR914NEI ChIP-seq EFO:0002067 K562 cell line Homo sapiens MTA3-human DNA formaldehyde False 2017-06-07 ENCODE 2, 3 ENCFF001TDO, ENCFF326WKP, ENCFF883SHN, ENCFF976RBY 528070 ENCODE Processing Pipeline 3ea3ef0e96deacc4e08f7eb62dbcdac3 https://www.encodeproject.org/files/ENCFF350YXB/@@download/ENCFF350YXB.bed.gz hg19 released mild to moderate bottlenecking ENCFF232UWD bed narrowPeak optimal idr thresholded peaks ENCSR417VWF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZEB2-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF175UOC, ENCFF271VJM, ENCFF979KSY 719548 ENCODE Processing Pipeline 534dd1d798aaf7794a32f4b69674baee https://www.encodeproject.org/files/ENCFF232UWD/@@download/ENCFF232UWD.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF670DXC bed narrowPeak optimal idr thresholded peaks ENCSR338DGO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-SCRT2-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF078MOK, ENCFF127FFP, ENCFF613MHZ 1195905 ENCODE Processing Pipeline 0465f1ea03614644875e7f9dd8a5ac2d https://www.encodeproject.org/files/ENCFF670DXC/@@download/ENCFF670DXC.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF845GIK bed narrowPeak optimal idr thresholded peaks ENCSR031URL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens XRCC5-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF163RUV, ENCFF199TUN, ENCFF631VBZ 540160 ENCODE Processing Pipeline 155ec78cf5c9064229429d9026619f5e https://www.encodeproject.org/files/ENCFF845GIK/@@download/ENCFF845GIK.bed.gz hg19 released low read length, mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody missing control alignments ENCFF020GMZ bed narrowPeak optimal idr thresholded peaks ENCSR711XNY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens PKNOX1-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF049YTC, ENCFF583BIS, ENCFF825QFX 624856 ENCODE Processing Pipeline 12bb6684c3e7567ee87c6ac3c7b4af68 https://www.encodeproject.org/files/ENCFF020GMZ/@@download/ENCFF020GMZ.bed.gz hg19 released mild to moderate bottlenecking ENCFF439XSW bed narrowPeak optimal idr thresholded peaks ENCSR738SLS ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF449-human DNA formaldehyde False 2017-11-28 ENCODE 1, 2 ENCFF001TDO, ENCFF354DQU, ENCFF428CYD, ENCFF745UIZ 373242 ENCODE Processing Pipeline 4673c6eb46e1586535bd6b710bbd59ff https://www.encodeproject.org/files/ENCFF439XSW/@@download/ENCFF439XSW.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF596OJV bed narrowPeak optimal idr thresholded peaks ENCSR126YEB ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens FOXA1-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF017WRM, ENCFF031CJZ, ENCFF565ZVL 661291 ENCODE Processing Pipeline 54fbe703b1a67e989d62a1761ae130d5 https://www.encodeproject.org/files/ENCFF596OJV/@@download/ENCFF596OJV.bed.gz hg19 released low read depth ENCFF641RNZ bed narrowPeak optimal idr thresholded peaks ENCSR197WGI ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens NFE2L2-human DNA False 2016-09-01 ENCODE 2, 3 ENCFF001TDO, ENCFF777LPB, ENCFF917EWZ, ENCFF950ARZ 275301 ENCODE Processing Pipeline 23071fd9061c37180996a41abc7793ae https://www.encodeproject.org/files/ENCFF641RNZ/@@download/ENCFF641RNZ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF514OOQ bed narrowPeak optimal idr thresholded peaks ENCSR218GSN ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens ZFX-human DNA False 2017-07-21 ENCODE 1, 2 ENCFF001TDO, ENCFF266JIG, ENCFF694AUF, ENCFF762KYA 438040 ENCODE Processing Pipeline b1370f2dae4b9b958efb4b081343162b https://www.encodeproject.org/files/ENCFF514OOQ/@@download/ENCFF514OOQ.bed.gz hg19 released antibody characterized with exemption NTR biosample ENCFF337FIU bed narrowPeak optimal idr thresholded peaks ENCSR128IYN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SNRNP70-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF253IKF, ENCFF441DMR, ENCFF568NCD 6156 ENCODE Processing Pipeline 5c6e5dcd2e6257ba6e19a2c101e0f053 https://www.encodeproject.org/files/ENCFF337FIU/@@download/ENCFF337FIU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF176KMF bed narrowPeak optimal idr thresholded peaks ENCSR156CWW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-DNMT3B-human DNA False 2016-09-26 ENCODE 1, 2 ENCFF001TDO, ENCFF295HXB, ENCFF453UZM, ENCFF837FJB 193128 ENCODE Processing Pipeline ce0f99a94593258bc7e60325d0302158 https://www.encodeproject.org/files/ENCFF176KMF/@@download/ENCFF176KMF.bed.gz hg19 released control low read depth, missing genetic modification characterization characterization(s) pending review ENCFF622OQC bed narrowPeak optimal idr thresholded peaks ENCSR950ACO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF785-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF357ABR, ENCFF739RJB, ENCFF782NYK 131637 ENCODE Processing Pipeline fc0db4a200773a7c3f6283611907280b https://www.encodeproject.org/files/ENCFF622OQC/@@download/ENCFF622OQC.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF782KFG bed narrowPeak optimal idr thresholded peaks ENCSR402IDP ChIP-seq EFO:0005724 MM.1S cell line Homo sapiens CTCF-human DNA False 2016-08-11 ENCODE 1, 2 ENCFF001TDO, ENCFF507RFD, ENCFF691NVX, ENCFF974RFW 751199 ENCODE Processing Pipeline 0c81256878b5c45a50617e772db57427 https://www.encodeproject.org/files/ENCFF782KFG/@@download/ENCFF782KFG.bed.gz hg19 released low read length, antibody characterized with exemption, mixed read lengths NTR biosample ENCFF521CRG bed narrowPeak optimal idr thresholded peaks ENCSR776CYN ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZFP36-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF233END, ENCFF688ELV, ENCFF734ODE 361453 ENCODE Processing Pipeline 8905c7dc4614bdddbe70d643dae0973b https://www.encodeproject.org/files/ENCFF521CRG/@@download/ENCFF521CRG.bed.gz hg19 released low read length, low read depth experiment not submitted to GEO partially characterized antibody ENCFF728WNY bed narrowPeak optimal idr thresholded peaks ENCSR617IFZ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-CTCF-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF021ZIA, ENCFF057EFZ, ENCFF427NOB 697367 ENCODE Processing Pipeline edd5bdc63348ba18d02943acb10ad47f https://www.encodeproject.org/files/ENCFF728WNY/@@download/ENCFF728WNY.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF159IBP bed narrowPeak optimal idr thresholded peaks ENCSR021DJC ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-BCL11A-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF467RAB, ENCFF472PYP, ENCFF923UBI 260279 ENCODE Processing Pipeline b8bd7659b324acfb916daa707ef07e9b https://www.encodeproject.org/files/ENCFF159IBP/@@download/ENCFF159IBP.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF495EIZ bed narrowPeak optimal idr thresholded peaks ENCSR592KSP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZFP64-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF145XAX, ENCFF299XYT, ENCFF491DIV 116405 ENCODE Processing Pipeline c5353bfdbe6e3862183ff0a7e2b3c370 https://www.encodeproject.org/files/ENCFF495EIZ/@@download/ENCFF495EIZ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF340UWW bed narrowPeak optimal idr thresholded peaks ENCSR440COG ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF239-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF527ZED, ENCFF798VDN, ENCFF985CPE 93108 ENCODE Processing Pipeline fe495cf60b20bfb4403c674739aecfe2 https://www.encodeproject.org/files/ENCFF340UWW/@@download/ENCFF340UWW.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF872YNU bed narrowPeak optimal idr thresholded peaks ENCSR079WHK ChIP-seq EFO:0002067 K562 cell line Homo sapiens MCM5-human DNA False 2016-09-27 ENCODE 1, 2 ENCFF001TDO, ENCFF397VOW, ENCFF415ATH, ENCFF508CQR 7405 ENCODE Processing Pipeline ee5d6d997ebb23f6c456b49af593f6a6 https://www.encodeproject.org/files/ENCFF872YNU/@@download/ENCFF872YNU.bed.gz hg19 released file validation error, borderline replicate concordance, low read depth mismatched file status ENCFF706LIT bed narrowPeak optimal idr thresholded peaks ENCSR107RHZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens YBX1-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF609DTK, ENCFF669CKL, ENCFF749VLH 26921 ENCODE Processing Pipeline 1fde054e4ffdaa0d943623283ebc001a https://www.encodeproject.org/files/ENCFF706LIT/@@download/ENCFF706LIT.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF163VUK bed narrowPeak optimal idr thresholded peaks ENCSR882ERE ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZKSCAN1-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF040DGA, ENCFF511MUZ, ENCFF656CUX 217692 ENCODE Processing Pipeline c743b22b355085c49a0ee67adfa8f5f2 https://www.encodeproject.org/files/ENCFF163VUK/@@download/ENCFF163VUK.bed.gz hg19 released low read length, low read depth ENCFF549KOD bed narrowPeak optimal idr thresholded peaks ENCSR547LKC ChIP-seq EFO:0002067 K562 cell line Homo sapiens GATAD2B-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF198CPZ, ENCFF418WIA, ENCFF849HOO 250332 ENCODE Processing Pipeline 4c6d59eb2d9fee9bb959881542988713 https://www.encodeproject.org/files/ENCFF549KOD/@@download/ENCFF549KOD.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF027VBY bed narrowPeak optimal idr thresholded peaks ENCSR464KFG ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF140-human DNA formaldehyde False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF509AXQ, ENCFF658NRV, ENCFF842XCR 144740 ENCODE Processing Pipeline 423ceb39342f97ef4e4d82e988e86d86 https://www.encodeproject.org/files/ENCFF027VBY/@@download/ENCFF027VBY.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF068DLY bed narrowPeak optimal idr thresholded peaks ENCSR702GMW ChIP-seq EFO:0002847 PC-9 cell line Homo sapiens EZH2phosphoT487-human DNA False 2018-02-06 ENCODE 1, 2 ENCFF001TDO, ENCFF432ZMO, ENCFF555PRT, ENCFF614KPG 89185 ENCODE Processing Pipeline 9a66417c7c7a963da54869ff4eff870e https://www.encodeproject.org/files/ENCFF068DLY/@@download/ENCFF068DLY.bed.gz hg19 released low read depth, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF944GZI bed narrowPeak optimal idr thresholded peaks ENCSR669NFS ChIP-seq EFO:0002067 K562 cell line Homo sapiens ARNT-human DNA False 2018-01-26 ENCODE 3, 4 ENCFF001TDO, ENCFF286UPH, ENCFF333QJD, ENCFF968TKP 115274 ENCODE Processing Pipeline 047a545f5de7e170d1e06e9dfe3ee10a https://www.encodeproject.org/files/ENCFF944GZI/@@download/ENCFF944GZI.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF477FYN bed narrowPeak optimal idr thresholded peaks ENCSR660RNO ChIP-seq EFO:0002067 K562 cell line Homo sapiens KDM4B-human DNA False 2017-11-14 ENCODE 2, 3 ENCFF001TDO, ENCFF057VLD, ENCFF242KBX, ENCFF529YAS 21910 ENCODE Processing Pipeline f56261dc7ae02440cb56935e0f8dfe87 https://www.encodeproject.org/files/ENCFF477FYN/@@download/ENCFF477FYN.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance experiment not submitted to GEO ENCFF392MUM bed narrowPeak optimal idr thresholded peaks ENCSR502OEK ChIP-seq EFO:0002067 K562 cell line Homo sapiens ELF1-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF725PEY, ENCFF813JVU, ENCFF883ZAE 271048 ENCODE Processing Pipeline feec5c83ee0073bfeead5b1f269e553f https://www.encodeproject.org/files/ENCFF392MUM/@@download/ENCFF392MUM.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF602CFZ bed narrowPeak optimal idr thresholded peaks ENCSR011NOZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF407-human DNA False 2016-11-10 ENCODE 1, 2 ENCFF001TDO, ENCFF067DNS, ENCFF370RXL, ENCFF904CJM 97867 ENCODE Processing Pipeline 514af67301c0f065646dccd0e7160e69 https://www.encodeproject.org/files/ENCFF602CFZ/@@download/ENCFF602CFZ.bed.gz hg19 released borderline replicate concordance, low read depth ENCFF908HDA bed narrowPeak optimal idr thresholded peaks ENCSR156APP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens PTBP1-human DNA SDS formaldehyde False 2018-01-19 ENCODE 1, 2 ENCFF001TDO, ENCFF129THB, ENCFF673SKG, ENCFF694HVC 84207 ENCODE Processing Pipeline ad083b3ab1da3ce892225a3f716fd069 https://www.encodeproject.org/files/ENCFF908HDA/@@download/ENCFF908HDA.bed.gz hg19 released low read length, borderline replicate concordance, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF671IJY bed narrowPeak optimal idr thresholded peaks ENCSR247XFV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CCAR2-human DNA SDS formaldehyde False 2018-01-22 ENCODE 1, 2 ENCFF001TDO, ENCFF013SWZ, ENCFF172AES, ENCFF929NFJ 54183 ENCODE Processing Pipeline 5cda46e2ece43da7153cc0b588f5c322 https://www.encodeproject.org/files/ENCFF671IJY/@@download/ENCFF671IJY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity experiment not submitted to GEO ENCFF523NXP bed narrowPeak optimal idr thresholded peaks ENCSR237TFX ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens CTBP1-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF031LVS, ENCFF094ESY, ENCFF851UVY 160167 ENCODE Processing Pipeline bc4c1b6642b6d7699879f3ae0fdc01fe https://www.encodeproject.org/files/ENCFF523NXP/@@download/ENCFF523NXP.bed.gz hg19 released borderline replicate concordance ENCFF292JRY bed narrowPeak optimal idr thresholded peaks ENCSR581CVA ChIP-seq EFO:0002067 K562 cell line Homo sapiens HNRNPH1-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF253KPM, ENCFF351HSM, ENCFF706ONY 6299 ENCODE Processing Pipeline 97f2c8d1d04eee8ffadd48bb50e8f670 https://www.encodeproject.org/files/ENCFF292JRY/@@download/ENCFF292JRY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO ENCFF146XEP bed narrowPeak optimal idr thresholded peaks ENCSR094WHO ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens FOXA1-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF288DTP, ENCFF329TNA, ENCFF893RQA 25374 ENCODE Processing Pipeline adde07d94f68bcd1be893e272c83d9a1 https://www.encodeproject.org/files/ENCFF146XEP/@@download/ENCFF146XEP.bed.gz hg19 released mild to moderate bottlenecking ENCFF298UPI bed narrowPeak optimal idr thresholded peaks ENCSR459FTB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens UBTF-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF191TQD, ENCFF688WOB, ENCFF878ZPT 28532 ENCODE Processing Pipeline c82f947c982c796763283fc21f4ad097 https://www.encodeproject.org/files/ENCFF298UPI/@@download/ENCFF298UPI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF745TNJ bed narrowPeak optimal idr thresholded peaks ENCSR459FTB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens UBTF-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF830BYO, ENCFF882ZXB, ENCFF911LYM 21700 ENCODE Processing Pipeline 39ff0a17cad317e0bf09d204c549746b https://www.encodeproject.org/files/ENCFF745TNJ/@@download/ENCFF745TNJ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF520EUT bed narrowPeak optimal idr thresholded peaks ENCSR661AXW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF169-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF167FGN, ENCFF547CJU, ENCFF803XKZ 58845 ENCODE Processing Pipeline d7873795b46c607c8403d8f8a40cb204 https://www.encodeproject.org/files/ENCFF520EUT/@@download/ENCFF520EUT.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF315VQM bed narrowPeak optimal idr thresholded peaks ENCSR897MYK ChIP-seq EFO:0001086 A549 cell line Homo sapiens SREBF1-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF290WHA, ENCFF491WEZ, ENCFF926IPE 68730 ENCODE Processing Pipeline 52c030c2d14a1c8c5aff2675d1e82050 https://www.encodeproject.org/files/ENCFF315VQM/@@download/ENCFF315VQM.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption ENCFF867MDW bed narrowPeak optimal idr thresholded peaks ENCSR897MYK ChIP-seq EFO:0001086 A549 cell line Homo sapiens SREBF1-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF106NTS, ENCFF110VMS, ENCFF705UHV 56334 ENCODE Processing Pipeline c3b9d02af760fd071247afc5a6bbaae8 https://www.encodeproject.org/files/ENCFF867MDW/@@download/ENCFF867MDW.bed.gz hg19 archived borderline replicate concordance, antibody characterized with exemption ENCFF327OLE bed narrowPeak optimal idr thresholded peaks ENCSR538RDA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF560-human DNA formaldehyde False 2017-03-16 ENCODE 2, 3 ENCFF001TDO, ENCFF440LIF, ENCFF499GFC, ENCFF713XEQ 66052 ENCODE Processing Pipeline 501d2e53908f7b544ac1f4282ef9b167 https://www.encodeproject.org/files/ENCFF327OLE/@@download/ENCFF327OLE.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF429ZIY bed narrowPeak optimal idr thresholded peaks ENCSR348ONY ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZFP41-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF426DPL, ENCFF501PBQ, ENCFF915WBL 18212 ENCODE Processing Pipeline d64e3cf006ce4efc395bab81f40295ff https://www.encodeproject.org/files/ENCFF429ZIY/@@download/ENCFF429ZIY.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF567GSX bed narrowPeak optimal idr thresholded peaks ENCSR512NLO ChIP-seq EFO:0002067 K562 cell line Homo sapiens MNT-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF595GHN, ENCFF799NMK, ENCFF846YPA 542551 ENCODE Processing Pipeline dade819d689c4ea2e878e83004ee4f3b https://www.encodeproject.org/files/ENCFF567GSX/@@download/ENCFF567GSX.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF870CER bed narrowPeak optimal idr thresholded peaks ENCSR197DJH ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens SREBF1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF225KYS, ENCFF531PCT, ENCFF642ZUX 194548 ENCODE Processing Pipeline cf46823662aa528fb2ccec35723bccae https://www.encodeproject.org/files/ENCFF870CER/@@download/ENCFF870CER.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF920HDC bed narrowPeak optimal idr thresholded peaks ENCSR347NOB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CEBPZ-human DNA False 2016-03-02 ENCODE 1, 3 ENCFF001TDO, ENCFF045PNJ, ENCFF140CXA, ENCFF932DYK 20648 ENCODE Processing Pipeline e61bfccca114033dcdd022214dce007f https://www.encodeproject.org/files/ENCFF920HDC/@@download/ENCFF920HDC.bed.gz hg19 released low read length, low read depth ENCFF925JLQ bed narrowPeak optimal idr thresholded peaks ENCSR605MGM ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-SCRT1-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF146RFU, ENCFF152AGB, ENCFF165IOO 499109 ENCODE Processing Pipeline af9f4d4445c5d2ba167fac3f5c784ed5 https://www.encodeproject.org/files/ENCFF925JLQ/@@download/ENCFF925JLQ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF294HEI bed narrowPeak optimal idr thresholded peaks ENCSR120MPG ChIP-seq EFO:0002067 K562 cell line Homo sapiens PRDM10-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF394QGN, ENCFF443DXB, ENCFF752PUJ 521743 ENCODE Processing Pipeline 0cf5614471526e753fbc503179bba328 https://www.encodeproject.org/files/ENCFF294HEI/@@download/ENCFF294HEI.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF043YZF bed narrowPeak optimal idr thresholded peaks ENCSR832OGB ChIP-seq EFO:0002067 K562 cell line Homo sapiens LEF1-human DNA False 2017-05-17 ENCODE 3, 4 ENCFF001TDO, ENCFF404ZDG, ENCFF700RYG, ENCFF804WBF 98778 ENCODE Processing Pipeline 35c35430c78f681d42182db300ec48a9 https://www.encodeproject.org/files/ENCFF043YZF/@@download/ENCFF043YZF.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF640ORY bed narrowPeak optimal idr thresholded peaks ENCSR184MFH ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens ZFP36-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF233ITG, ENCFF491ZMR, ENCFF979YOQ 61240 ENCODE Processing Pipeline 9e4bcfd497cd57be71e9c3fccf8aba30 https://www.encodeproject.org/files/ENCFF640ORY/@@download/ENCFF640ORY.bed.gz hg19 released low read length, low read depth experiment not submitted to GEO partially characterized antibody ENCFF107VFO bed narrowPeak optimal idr thresholded peaks ENCSR715QNO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF362-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF629XQO, ENCFF670NPG, ENCFF922DZD 518854 ENCODE Processing Pipeline 7a3f22115cf0be3887d223956fb9f1d5 https://www.encodeproject.org/files/ENCFF107VFO/@@download/ENCFF107VFO.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF266ORV bed narrowPeak optimal idr thresholded peaks ENCSR473SUA ChIP-seq EFO:0001086 A549 cell line Homo sapiens ESRRA-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF391VQJ, ENCFF705XME, ENCFF804JRA 49062 ENCODE Processing Pipeline ce2747e5015c7e856e938d40df5e310a https://www.encodeproject.org/files/ENCFF266ORV/@@download/ENCFF266ORV.bed.gz hg19 released file validation error, low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance mismatched file status ENCFF943HTN bed narrowPeak optimal idr thresholded peaks ENCSR443MVV ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-PRDM4-human DNA formaldehyde False 2017-02-10 ENCODE 2, 3 ENCFF001TDO, ENCFF067KHY, ENCFF514JHJ, ENCFF839RPM 402059 ENCODE Processing Pipeline 8f8082a056f525a7ce0da661d0177bea https://www.encodeproject.org/files/ENCFF943HTN/@@download/ENCFF943HTN.bed.gz hg19 released missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF290NCZ bed narrowPeak optimal idr thresholded peaks ENCSR502KPJ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF843-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF791XWT, ENCFF806EBP, ENCFF830DCZ 452899 ENCODE Processing Pipeline e67e0766ab42748a188a7608d5f535fb https://www.encodeproject.org/files/ENCFF290NCZ/@@download/ENCFF290NCZ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF044NEB bed narrowPeak optimal idr thresholded peaks ENCSR954WVZ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ESRRA-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF486JBY, ENCFF526YPV, ENCFF671MPM 217643 ENCODE Processing Pipeline 513e2c9ea79bc8dcc6bb801f67e6a7b5 https://www.encodeproject.org/files/ENCFF044NEB/@@download/ENCFF044NEB.bed.gz hg19 released mild to moderate bottlenecking ENCFF040STP bed narrowPeak optimal idr thresholded peaks ENCSR954WVZ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ESRRA-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF094SQM, ENCFF181NXH, ENCFF394AHT 178771 ENCODE Processing Pipeline 9b97bb8fae61a2408b02082eb66a1c5f https://www.encodeproject.org/files/ENCFF040STP/@@download/ENCFF040STP.bed.gz hg19 archived mild to moderate bottlenecking ENCFF779HAK bed narrowPeak optimal idr thresholded peaks ENCSR080CST ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF639-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF286QPO, ENCFF358DXV, ENCFF475IAW 330900 ENCODE Processing Pipeline 8722fa4f64d15c5fcac98cd932aaeed0 https://www.encodeproject.org/files/ENCFF779HAK/@@download/ENCFF779HAK.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF432DIT bed narrowPeak optimal idr thresholded peaks ENCSR543BVU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SOX6-human DNA False 2017-06-29 ENCODE 1, 2 ENCFF001TDO, ENCFF360HFD, ENCFF882RKE, ENCFF971KNY 37138 ENCODE Processing Pipeline e6719c81f02b90d02f1a15c0eff4e0b8 https://www.encodeproject.org/files/ENCFF432DIT/@@download/ENCFF432DIT.bed.gz hg19 released file validation error, borderline replicate concordance, antibody characterized with exemption mismatched file status ENCFF911RTR bed narrowPeak optimal idr thresholded peaks ENCSR224NFP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF426-human DNA formaldehyde False 2017-03-16 ENCODE 1, 2 ENCFF001TDO, ENCFF257CHZ, ENCFF406TUM, ENCFF779HVA 149011 ENCODE Processing Pipeline 2e98f3399dc33aa790ee39df5337bb39 https://www.encodeproject.org/files/ENCFF911RTR/@@download/ENCFF911RTR.bed.gz hg19 released mild to moderate bottlenecking, inconsistent platforms, moderate library complexity, missing genetic modification characterization missing control alignments ENCFF651PWG bed narrowPeak optimal idr thresholded peaks ENCSR135ANT ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens NRF1-human DNA False 2016-06-14 ENCODE 1, 3 ENCFF001TDO, ENCFF187EXP, ENCFF444PKI, ENCFF466LLW 120459 ENCODE Processing Pipeline f02c4a616c04a2ab5784f3edd9a3c916 https://www.encodeproject.org/files/ENCFF651PWG/@@download/ENCFF651PWG.bed.gz hg19 released ENCFF492GXZ bed narrowPeak optimal idr thresholded peaks ENCSR508DQA ChIP-seq EFO:0002067 K562 cell line Homo sapiens FOXK2-human DNA False 2016-04-22 ENCODE 1, 2 ENCFF001TDO, ENCFF158PJI, ENCFF188GHO, ENCFF451DBC 368132 ENCODE Processing Pipeline 78f64e4354c002e60b1ba43e77ebe73c https://www.encodeproject.org/files/ENCFF492GXZ/@@download/ENCFF492GXZ.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF816GRJ bed narrowPeak optimal idr thresholded peaks ENCSR210ZYL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NBN-human DNA False 2017-05-18 ENCODE 3, 4 ENCFF030UIB, ENCFF197WCL, ENCFF738RRZ 49942 ENCODE Processing Pipeline b1c3e005f164c4884804f80a1050381e https://www.encodeproject.org/files/ENCFF816GRJ/@@download/ENCFF816GRJ.bed.gz hg19 archived borderline replicate concordance ENCFF075PDC bed narrowPeak optimal idr thresholded peaks ENCSR210ZYL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NBN-human DNA False 2017-05-18 ENCODE 3, 4 ENCFF001TDO, ENCFF084RKF, ENCFF860QPW, ENCFF904SKF 48337 ENCODE Processing Pipeline abda608c14d5e0e618df18420c4dc60b https://www.encodeproject.org/files/ENCFF075PDC/@@download/ENCFF075PDC.bed.gz hg19 released borderline replicate concordance ENCFF188XRD bed narrowPeak optimal idr thresholded peaks ENCSR892DRK ChIP-seq EFO:0001086 A549 cell line Homo sapiens REST-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF430GOT, ENCFF767OVA, ENCFF819QEC 183739 ENCODE Processing Pipeline 628ccc989464e3745af21f78c7c0831b https://www.encodeproject.org/files/ENCFF188XRD/@@download/ENCFF188XRD.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption ENCFF163MWF bed narrowPeak optimal idr thresholded peaks ENCSR721QZV ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZSCAN18-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF238LEE, ENCFF832PXR, ENCFF854ZRK 84445 ENCODE Processing Pipeline 8fc6ea81f29eab08af87c1466d6aa09e https://www.encodeproject.org/files/ENCFF163MWF/@@download/ENCFF163MWF.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF667PAI bed narrowPeak optimal idr thresholded peaks ENCSR849DFF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-PBX2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF230HGO, ENCFF364KNO, ENCFF834BOR 103649 ENCODE Processing Pipeline 20d1799d8450373b83edb9309eb79e80 https://www.encodeproject.org/files/ENCFF667PAI/@@download/ENCFF667PAI.bed.gz hg19 released control low read depth, borderline replicate concordance, low read depth, missing genetic modification characterization characterization(s) pending review ENCFF405RGE bed narrowPeak optimal idr thresholded peaks ENCSR984MDV ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF24-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF581CAJ, ENCFF722BQJ, ENCFF899PSA 404688 ENCODE Processing Pipeline 6f19ceea45043e71e9e58aef27978f87 https://www.encodeproject.org/files/ENCFF405RGE/@@download/ENCFF405RGE.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF735WFO bed narrowPeak optimal idr thresholded peaks ENCSR061DGF ChIP-seq EFO:0007950 GM23338 induced pluripotent stem cell line Homo sapiens NANOG-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF039PBB, ENCFF326RNA, ENCFF967PXA 200875 ENCODE Processing Pipeline 29c10e45fa37cf7416d81f1e6f977d5c https://www.encodeproject.org/files/ENCFF735WFO/@@download/ENCFF735WFO.bed.gz hg19 released borderline replicate concordance, antibody characterized with exemption biological replicates with identical biosample, experiment not submitted to GEO ENCFF941RVL bed narrowPeak optimal idr thresholded peaks ENCSR052PTN ChIP-seq EFO:0002067 K562 cell line Homo sapiens PCBP1-human DNA SDS formaldehyde False 2018-01-16 ENCODE 1, 2 ENCFF001TDO, ENCFF086XWF, ENCFF656LKP, ENCFF921JTC 198461 ENCODE Processing Pipeline 8fd9450404706c39c0454c49bc4f916f https://www.encodeproject.org/files/ENCFF941RVL/@@download/ENCFF941RVL.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF995IAC bed narrowPeak optimal idr thresholded peaks ENCSR158RYZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZBTB40-human DNA False 2017-12-01 ENCODE 3, 4 ENCFF001TDO, ENCFF016RIL, ENCFF696LOS, ENCFF997KYE 350377 ENCODE Processing Pipeline 5fc18b2a8f2ddbf62a95eb4350681ef0 https://www.encodeproject.org/files/ENCFF995IAC/@@download/ENCFF995IAC.bed.gz hg19 released control low read depth, borderline replicate concordance, missing genetic modification characterization experiment not submitted to GEO ENCFF520CSO bed narrowPeak optimal idr thresholded peaks ENCSR862PNL ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens L3MBTL2-human DNA False 2016-11-21 ENCODE 1, 2 ENCFF001TDO, ENCFF394TJZ, ENCFF730CLD, ENCFF836EUO 494230 ENCODE Processing Pipeline 630131dae357dfd7d8bf962892cbc130 https://www.encodeproject.org/files/ENCFF520CSO/@@download/ENCFF520CSO.bed.gz hg19 released mild to moderate bottlenecking ENCFF777CWV bed narrowPeak optimal idr thresholded peaks ENCSR014RCS ChIP-seq EFO:0002067 K562 cell line Homo sapiens HNRNPK-human DNA SDS formaldehyde False 2018-01-19 ENCODE 1, 2 ENCFF001TDO, ENCFF037LWJ, ENCFF409JZE, ENCFF439JKZ 198809 ENCODE Processing Pipeline 8eacb6c36160d8886684bfef22a5db39 https://www.encodeproject.org/files/ENCFF777CWV/@@download/ENCFF777CWV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, insufficient read depth, severe bottlenecking ENCFF572WXJ bed narrowPeak optimal idr thresholded peaks ENCSR595FAO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF510-human DNA formaldehyde False 2018-01-30 ENCODE 1, 2 ENCFF001TDO, ENCFF210XHR, ENCFF355HPD, ENCFF690BQH 103751 ENCODE Processing Pipeline 660ad8e23100863f0c553b4f6850b50b https://www.encodeproject.org/files/ENCFF572WXJ/@@download/ENCFF572WXJ.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF726VEK bed narrowPeak optimal idr thresholded peaks ENCSR014YCR ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ATF7-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF225TLM, ENCFF640EFU, ENCFF938MOR 702985 ENCODE Processing Pipeline 854d3dcf4854f6b4f25251cadf429439 https://www.encodeproject.org/files/ENCFF726VEK/@@download/ENCFF726VEK.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF213EPU bed narrowPeak optimal idr thresholded peaks ENCSR486IFJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ESRRA-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF106AUG, ENCFF406YGF, ENCFF619KMH 592333 ENCODE Processing Pipeline bfd05e28fd40d1e2a57b194812d2950e https://www.encodeproject.org/files/ENCFF213EPU/@@download/ENCFF213EPU.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF602OKQ bed narrowPeak optimal idr thresholded peaks ENCSR486IFJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ESRRA-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF122FWH, ENCFF240NFK, ENCFF313UKE 520809 ENCODE Processing Pipeline 03db0bf5bd21f1912d550e6072f5ece4 https://www.encodeproject.org/files/ENCFF602OKQ/@@download/ENCFF602OKQ.bed.gz hg19 archived mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF059WVE bed narrowPeak optimal idr thresholded peaks ENCSR222MYK ChIP-seq EFO:0002067 K562 cell line Homo sapiens SRSF7-human DNA SDS formaldehyde False 2017-08-17 ENCODE 1, 2 ENCFF001TDO, ENCFF037TEH, ENCFF087ZHG, ENCFF128NOD 3792 ENCODE Processing Pipeline c8eb54c4d7c2c6737f7bfd9b2edb9df1 https://www.encodeproject.org/files/ENCFF059WVE/@@download/ENCFF059WVE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF837HCH bed narrowPeak optimal idr thresholded peaks ENCSR396QWK ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-MBD1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF151CJE, ENCFF775VAP, ENCFF935PRS 199892 ENCODE Processing Pipeline 612b5357f838579f884e20cfc9b356d4 https://www.encodeproject.org/files/ENCFF837HCH/@@download/ENCFF837HCH.bed.gz hg19 released control low read depth, low read depth, missing genetic modification characterization characterization(s) pending review ENCFF659WAF bed narrowPeak optimal idr thresholded peaks ENCSR343ELW ChIP-seq EFO:0002067 K562 cell line Homo sapiens LEF1-human DNA False 2016-07-05 ENCODE 3, 4 ENCFF001TDO, ENCFF421AHE, ENCFF506NOD, ENCFF857NTV 338164 ENCODE Processing Pipeline 17a9dcb21ebd4ab5fd04becd0fe896f9 https://www.encodeproject.org/files/ENCFF659WAF/@@download/ENCFF659WAF.bed.gz hg19 released mild to moderate bottlenecking ENCFF667AEK bed narrowPeak optimal idr thresholded peaks ENCSR497IAS ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF747-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF140DBO, ENCFF595AYG, ENCFF893YFR 28413 ENCODE Processing Pipeline 141b6c8e80ee2e52077ab46122838487 https://www.encodeproject.org/files/ENCFF667AEK/@@download/ENCFF667AEK.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF768SBV bed narrowPeak optimal idr thresholded peaks ENCSR098YLE ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-PRDM1-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF425TQN, ENCFF861YYQ, ENCFF890GNM 948096 ENCODE Processing Pipeline 999edc5d4734e677035c726ccef747d5 https://www.encodeproject.org/files/ENCFF768SBV/@@download/ENCFF768SBV.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF166OZW bed narrowPeak optimal idr thresholded peaks ENCSR590KEQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ARNT-human DNA False 2017-11-14 ENCODE 2, 3 ENCFF001TDO, ENCFF076KST, ENCFF120JZJ, ENCFF432CDN 392782 ENCODE Processing Pipeline bc27294f20916f956fe9f163466e61a7 https://www.encodeproject.org/files/ENCFF166OZW/@@download/ENCFF166OZW.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO ENCFF260VLG bed narrowPeak optimal idr thresholded peaks ENCSR477OJI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF423-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF652PGK, ENCFF668IDF, ENCFF910YVQ 225785 ENCODE Processing Pipeline 1618a96c92a4119db18fd65d66903817 https://www.encodeproject.org/files/ENCFF260VLG/@@download/ENCFF260VLG.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF144FQA bed narrowPeak optimal idr thresholded peaks ENCSR171FUX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXK2-human DNA False 2016-04-22 ENCODE 1, 2 ENCFF001TDO, ENCFF076ZSW, ENCFF765WNF, ENCFF834WHV 196025 ENCODE Processing Pipeline 17e7c688b36ce8a85f53635d7fa8324d https://www.encodeproject.org/files/ENCFF144FQA/@@download/ENCFF144FQA.bed.gz hg19 released ENCFF053UVX bed narrowPeak optimal idr thresholded peaks ENCSR854IPI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF707-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF244RZK, ENCFF293RJU, ENCFF316OES 64612 ENCODE Processing Pipeline bcc832454684ae08ab68d99dc8183f78 https://www.encodeproject.org/files/ENCFF053UVX/@@download/ENCFF053UVX.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF772HOY bed narrowPeak optimal idr thresholded peaks ENCSR596IKD ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ETS2-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF331IWR, ENCFF804AYO, ENCFF982UOO 34602 ENCODE Processing Pipeline 8faf266dc68894e370a91f3389c162da https://www.encodeproject.org/files/ENCFF772HOY/@@download/ENCFF772HOY.bed.gz hg19 released file validation error, mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization mismatched file status, experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF849ZUF bed narrowPeak optimal idr thresholded peaks ENCSR563YDA ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDGF-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF328KFN, ENCFF415ZVO, ENCFF701JMF 214540 ENCODE Processing Pipeline 5889d9be33d5b555b97ac8b885edd835 https://www.encodeproject.org/files/ENCFF849ZUF/@@download/ENCFF849ZUF.bed.gz hg19 released ENCFF676NPW bed narrowPeak optimal idr thresholded peaks ENCSR091JXL ChIP-seq EFO:0002067 K562 cell line Homo sapiens HES1-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF222PPL, ENCFF786MKH, ENCFF860KMP 171892 ENCODE Processing Pipeline b2426299acedb3521638e6d425f68ba5 https://www.encodeproject.org/files/ENCFF676NPW/@@download/ENCFF676NPW.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF363QMG bed narrowPeak optimal idr thresholded peaks ENCSR754MUD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SKI-human DNA False 2018-01-26 ENCODE 2, 3 ENCFF001TDO, ENCFF100FCL, ENCFF360EGT, ENCFF601QAF 538846 ENCODE Processing Pipeline 5d8eac327034da7d5ea1e8c5f839c912 https://www.encodeproject.org/files/ENCFF363QMG/@@download/ENCFF363QMG.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF706XII bed narrowPeak optimal idr thresholded peaks ENCSR701RXW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF530-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF024NLW, ENCFF157HQJ, ENCFF900JOP 41398 ENCODE Processing Pipeline 8251abd1b0d892029062f364c9d93e38 https://www.encodeproject.org/files/ENCFF706XII/@@download/ENCFF706XII.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF380TJT bed narrowPeak optimal idr thresholded peaks ENCSR625ORP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SYNCRIP-human DNA SDS formaldehyde False 2018-05-16 ENCODE 1, 2 ENCFF001TDO, ENCFF179KYF, ENCFF599KFI, ENCFF890HLT 1111 ENCODE Processing Pipeline a2b696f4cb520051989d7aee75b9d2a6 https://www.encodeproject.org/files/ENCFF380TJT/@@download/ENCFF380TJT.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO insufficient read depth ENCFF904HOD bed narrowPeak optimal idr thresholded peaks ENCSR076EZB ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-KLF9-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF269OXE, ENCFF344BWA, ENCFF621XNB 446663 ENCODE Processing Pipeline 33190e94f5e15116004409a0363b4ac7 https://www.encodeproject.org/files/ENCFF904HOD/@@download/ENCFF904HOD.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF937MYV bed narrowPeak optimal idr thresholded peaks ENCSR066FXN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNRNPH1-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF043LEZ, ENCFF061XHO, ENCFF945SAK 46710 ENCODE Processing Pipeline 31ef26daf87a9f9a5171bc8f6f303164 https://www.encodeproject.org/files/ENCFF937MYV/@@download/ENCFF937MYV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO ENCFF776XRJ bed narrowPeak optimal idr thresholded peaks ENCSR252QYR ChIP-seq CL:0000182 hepatocyte in vitro differentiated cells Homo sapiens CTCF-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF345DIK, ENCFF930XLW, ENCFF996USV 797130 ENCODE Processing Pipeline 84d8d7eb11a665074e4b30090ff0197d https://www.encodeproject.org/files/ENCFF776XRJ/@@download/ENCFF776XRJ.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption NTR biosample poor library complexity ENCFF539CKD bed narrowPeak optimal idr thresholded peaks ENCSR542FLV ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZBTB33-human DNA False 2017-11-13 ENCODE 1, 4 ENCFF001TDO, ENCFF038RJE, ENCFF480CCO, ENCFF833YUF 175352 ENCODE Processing Pipeline 7d363f200e0f6652249cddc58feb5f2d https://www.encodeproject.org/files/ENCFF539CKD/@@download/ENCFF539CKD.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance experiment not submitted to GEO ENCFF728MIJ bed narrowPeak optimal idr thresholded peaks ENCSR692HSE ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-YY2-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF387NRB, ENCFF749DKD, ENCFF910ZAR 194681 ENCODE Processing Pipeline 7bc55708af4ac21bfca630f4e6e3c3ce https://www.encodeproject.org/files/ENCFF728MIJ/@@download/ENCFF728MIJ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF847HDW bed narrowPeak optimal idr thresholded peaks ENCSR277VIC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HDAC6-human DNA False 2017-12-14 ENCODE 1, 2 ENCFF001TDO, ENCFF363SUO, ENCFF453FOJ, ENCFF636HOL 22834 ENCODE Processing Pipeline 90d94f1c3b2b0814801f992432540df3 https://www.encodeproject.org/files/ENCFF847HDW/@@download/ENCFF847HDW.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption experiment not submitted to GEO ENCFF905VXX bed narrowPeak optimal idr thresholded peaks ENCSR429XTR ChIP-seq EFO:0002067 K562 cell line Homo sapiens TARDBP-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF368IHM, ENCFF700XRO, ENCFF958WJN 148569 ENCODE Processing Pipeline dc9b0aa9306a30f02136fb2eb7c10c72 https://www.encodeproject.org/files/ENCFF905VXX/@@download/ENCFF905VXX.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF134CUM bed narrowPeak optimal idr thresholded peaks ENCSR119VCX ChIP-seq EFO:0002067 K562 cell line Homo sapiens PHF21A-human DNA False 2017-09-28 ENCODE 1, 2 ENCFF001TDO, ENCFF452MJW, ENCFF700GJA, ENCFF776LQY 168516 ENCODE Processing Pipeline b52e0fd32c00468eb65ad29e0e7bf9b6 https://www.encodeproject.org/files/ENCFF134CUM/@@download/ENCFF134CUM.bed.gz hg19 released borderline replicate concordance, low read depth ENCFF226CZE bed narrowPeak optimal idr thresholded peaks ENCSR552PSV ChIP-seq EFO:0002067 K562 cell line Homo sapiens MCM2-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF322PWJ, ENCFF612RKY, ENCFF834QOU 88714 ENCODE Processing Pipeline 414496a7c317bfc3f9a776d9cde1d3d8 https://www.encodeproject.org/files/ENCFF226CZE/@@download/ENCFF226CZE.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF095GMM bed narrowPeak optimal idr thresholded peaks ENCSR987MTA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BHLHE40-human DNA False 2017-01-31 ENCODE 4, 5 ENCFF001TDO, ENCFF172YHV, ENCFF468GKJ, ENCFF884ZYH 904897 ENCODE Processing Pipeline c23284256b4100cd845e6f844e468872 https://www.encodeproject.org/files/ENCFF095GMM/@@download/ENCFF095GMM.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth duplicate lane review ENCFF032DEW bed narrowPeak optimal idr thresholded peaks ENCSR243INX ChIP-seq EFO:0002847 PC-9 cell line Homo sapiens CTCF-human DNA False 2017-01-12 ENCODE 1, 2 ENCFF001TDO, ENCFF227KPY, ENCFF399PZK, ENCFF524ADR 1077256 ENCODE Processing Pipeline 2af95dd3b3a987bf9d9c29d4340c0e5b https://www.encodeproject.org/files/ENCFF032DEW/@@download/ENCFF032DEW.bed.gz hg19 released mild to moderate bottlenecking, mixed run types, moderate library complexity, antibody characterized with exemption NTR biosample ENCFF152VMJ bed narrowPeak optimal idr thresholded peaks ENCSR201NQZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTBP1-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF066ESG, ENCFF467AZP, ENCFF860LBQ 860855 ENCODE Processing Pipeline 43558d97b59309ab4ef82a6f8566b6ec https://www.encodeproject.org/files/ENCFF152VMJ/@@download/ENCFF152VMJ.bed.gz hg19 released borderline replicate concordance ENCFF614VFL bed narrowPeak optimal idr thresholded peaks ENCSR157CAU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZKSCAN1-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF312ZWV, ENCFF354CCY, ENCFF893SRK 129340 ENCODE Processing Pipeline 36b24c36febd1db2d5ea0e2fc9789689 https://www.encodeproject.org/files/ENCFF614VFL/@@download/ENCFF614VFL.bed.gz hg19 released low read length, borderline replicate concordance ENCFF220KNX bed narrowPeak optimal idr thresholded peaks ENCSR157CAU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZKSCAN1-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF047PAI, ENCFF887HYM, ENCFF913EOX 114301 ENCODE Processing Pipeline 530d1b8c3c1ea42f3b9576f68d93b047 https://www.encodeproject.org/files/ENCFF220KNX/@@download/ENCFF220KNX.bed.gz hg19 archived low read length, borderline replicate concordance ENCFF411BAO bed narrowPeak optimal idr thresholded peaks ENCSR140DSL ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MAFF-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF145POH, ENCFF492VYK, ENCFF997ZWI 417897 ENCODE Processing Pipeline 93e40b0388115ea73bf792c3d8ac3034 https://www.encodeproject.org/files/ENCFF411BAO/@@download/ENCFF411BAO.bed.gz hg19 released low read length ENCFF939XMX bed narrowPeak optimal idr thresholded peaks ENCSR140DSL ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MAFF-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF507YIO, ENCFF554QCN, ENCFF575MOS 387529 ENCODE Processing Pipeline b5dec8637459a297eb2a3963dce733a9 https://www.encodeproject.org/files/ENCFF939XMX/@@download/ENCFF939XMX.bed.gz hg19 archived low read length ENCFF085BBF bed narrowPeak optimal idr thresholded peaks ENCSR179SAO ChIP-seq EFO:0002106 A673 cell line Homo sapiens EZH2-human DNA False 2017-11-29 ENCODE 1, 2 ENCFF001TDO, ENCFF155LWQ, ENCFF220SFO, ENCFF396SZC 141143 ENCODE Processing Pipeline 62e8c175705b78fd53128f0862c166eb https://www.encodeproject.org/files/ENCFF085BBF/@@download/ENCFF085BBF.bed.gz hg19 released borderline replicate concordance, low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption, mixed read lengths NTR biosample, experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF005XPI bed narrowPeak optimal idr thresholded peaks ENCSR909TSW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF547-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF152WTV, ENCFF748SDI, ENCFF979TGX 104936 ENCODE Processing Pipeline 0ad3893b093d9684c7abab7dfde25102 https://www.encodeproject.org/files/ENCFF005XPI/@@download/ENCFF005XPI.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF057UHI bed narrowPeak optimal idr thresholded peaks ENCSR635NOQ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-KLF8-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF762SKC, ENCFF838EMX, ENCFF917MIW 576408 ENCODE Processing Pipeline 537e0dcd597f1c885c77d76ed3d6b627 https://www.encodeproject.org/files/ENCFF057UHI/@@download/ENCFF057UHI.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF761MGJ bed narrowPeak optimal idr thresholded peaks ENCSR681NOM ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CEBPB-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF017STY, ENCFF284OML, ENCFF300RLB 41700 ENCODE Processing Pipeline 380214c27906f67ff28dec054d68900a https://www.encodeproject.org/files/ENCFF761MGJ/@@download/ENCFF761MGJ.bed.gz hg19 released low read length, low read depth ENCFF246VJH bed narrowPeak optimal idr thresholded peaks ENCSR377BLZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens GTF2F1-human DNA SDS formaldehyde False 2018-01-16 ENCODE 1, 2 ENCFF001TDO, ENCFF498CHM, ENCFF559OHC, ENCFF583UDD 263665 ENCODE Processing Pipeline 73c53958a16e09e0c2ba93843f2da5c4 https://www.encodeproject.org/files/ENCFF246VJH/@@download/ENCFF246VJH.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF601XVA bed narrowPeak optimal idr thresholded peaks ENCSR785OKZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RB1-human DNA formaldehyde False 2017-06-07 ENCODE 3, 4 ENCFF001TDO, ENCFF436OTJ, ENCFF452IKX, ENCFF936FBJ 363397 ENCODE Processing Pipeline 04fd5d92531b46908c2f3bf60b199d9a https://www.encodeproject.org/files/ENCFF601XVA/@@download/ENCFF601XVA.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF460OWI bed narrowPeak optimal idr thresholded peaks ENCSR945NSF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens PCBP2-human DNA SDS formaldehyde False 2018-01-16 ENCODE 1, 2 ENCFF001TDO, ENCFF155AMR, ENCFF174MCF, ENCFF574KTG 73393 ENCODE Processing Pipeline d6389652c6e67c173138bb1b4e326b7b https://www.encodeproject.org/files/ENCFF460OWI/@@download/ENCFF460OWI.bed.gz hg19 released low read length, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF620ZDF bed narrowPeak optimal idr thresholded peaks ENCSR859BMR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-KLF1-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF045DDN, ENCFF177PBO, ENCFF875YEH 690446 ENCODE Processing Pipeline 2698efb354794c0218e90f40df413017 https://www.encodeproject.org/files/ENCFF620ZDF/@@download/ENCFF620ZDF.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF070GBJ bed narrowPeak optimal idr thresholded peaks ENCSR827NWO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-FEZF1-human DNA formaldehyde False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF255SFG, ENCFF922GQP, ENCFF974BNY 610925 ENCODE Processing Pipeline faba603b80252018fe24c6ca53ec2fdf https://www.encodeproject.org/files/ENCFF070GBJ/@@download/ENCFF070GBJ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF492DZG bed narrowPeak optimal idr thresholded peaks ENCSR288IJC ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MAZ-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF184RLT, ENCFF386ILV, ENCFF917ALR 364883 ENCODE Processing Pipeline 1671a4b78c9af2be9439811695455aab https://www.encodeproject.org/files/ENCFF492DZG/@@download/ENCFF492DZG.bed.gz hg19 released antibody characterized with exemption ENCFF688MSK bed narrowPeak optimal idr thresholded peaks ENCSR288IJC ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MAZ-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF040IGJ, ENCFF364YQW, ENCFF920MOI 305755 ENCODE Processing Pipeline b1586dfc4ee3e7a69a6c4677b32b5dfc https://www.encodeproject.org/files/ENCFF688MSK/@@download/ENCFF688MSK.bed.gz hg19 archived antibody characterized with exemption ENCFF754GUT bed narrowPeak optimal idr thresholded peaks ENCSR563FBT ChIP-seq EFO:0001086 A549 cell line Homo sapiens USF2-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF228YLF, ENCFF664JOM, ENCFF735LLC 215763 ENCODE Processing Pipeline f6f7b983fea0068328111da329526b42 https://www.encodeproject.org/files/ENCFF754GUT/@@download/ENCFF754GUT.bed.gz hg19 released antibody characterized with exemption ENCFF980KSV bed narrowPeak optimal idr thresholded peaks ENCSR861JUQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens FOXK2-human DNA False 2017-01-27 ENCODE 1, 2 ENCFF001TDO, ENCFF014VXF, ENCFF348PZF, ENCFF870DSA 101906 ENCODE Processing Pipeline ceed3be232cda7bc789bc4f322683f0f https://www.encodeproject.org/files/ENCFF980KSV/@@download/ENCFF980KSV.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF756HSC bed narrowPeak optimal idr thresholded peaks ENCSR584ATA ChIP-seq EFO:0006710 OCI-LY3 cell line Homo sapiens EZH2phosphoT487-human DNA False 2018-02-06 ENCODE 1, 2 ENCFF001TDO, ENCFF796TTQ, ENCFF824PBX, ENCFF895NJW 33287 ENCODE Processing Pipeline 26be33f99880f04312294e96795f82df https://www.encodeproject.org/files/ENCFF756HSC/@@download/ENCFF756HSC.bed.gz hg19 released mixed run types, low read depth, antibody characterized with exemption biological replicates with identical biosample, NTR biosample, experiment not submitted to GEO ENCFF507MGL bed narrowPeak optimal idr thresholded peaks ENCSR155KHM ChIP-seq EFO:0002067 K562 cell line Homo sapiens ARNT-human DNA False 2016-04-21 ENCODE 1, 2 ENCFF001TDO, ENCFF011UZZ, ENCFF071HZE, ENCFF652WXC 214239 ENCODE Processing Pipeline 5840c9b0b65a89375f82d3cdf94ec1f5 https://www.encodeproject.org/files/ENCFF507MGL/@@download/ENCFF507MGL.bed.gz hg19 released mild to moderate bottlenecking ENCFF343ULZ bed narrowPeak optimal idr thresholded peaks ENCSR866QPZ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ATF7-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF015TCM, ENCFF391ODX, ENCFF998CHH 434730 ENCODE Processing Pipeline 4ad000f92723a9df7fab2b70ff4cf1c9 https://www.encodeproject.org/files/ENCFF343ULZ/@@download/ENCFF343ULZ.bed.gz hg19 released mild to moderate bottlenecking, low read depth, antibody characterized with exemption ENCFF144FCI bed narrowPeak optimal idr thresholded peaks ENCSR900XDB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZFP36-human DNA False 2014-07-07 ENCODE 4, 5 ENCFF001TDO, ENCFF380MCV, ENCFF527IRJ, ENCFF772RKI 175071 ENCODE Processing Pipeline 725a70663ca7828abe2e411b97c0330b https://www.encodeproject.org/files/ENCFF144FCI/@@download/ENCFF144FCI.bed.gz hg19 released low read length, mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody ENCFF355OQM bed narrowPeak optimal idr thresholded peaks ENCSR066BZZ ChIP-seq CL:0000103 bipolar neuron in vitro differentiated cells Homo sapiens doxycycline hyclate 0.5 μg/mL 4 day CTCF-human DNA False 2016-11-24 ENCODE 1, 2 ENCFF001TDO, ENCFF282QPK, ENCFF566IFZ, ENCFF752PSY 1382660 ENCODE Processing Pipeline aa33c900320825756bfd377ef566f12e https://www.encodeproject.org/files/ENCFF355OQM/@@download/ENCFF355OQM.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption NTR biosample ENCFF099BZU bed narrowPeak optimal idr thresholded peaks ENCSR519QAA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNRNPK-human DNA SDS formaldehyde False 2018-01-16 ENCODE 1, 2 ENCFF001TDO, ENCFF003ARN, ENCFF251ZGT, ENCFF792GAN 431126 ENCODE Processing Pipeline 20dfbbc9ee14fb41759694702fecf341 https://www.encodeproject.org/files/ENCFF099BZU/@@download/ENCFF099BZU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF424KTS bed narrowPeak optimal idr thresholded peaks ENCSR101FJS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TBL1XR1-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF342PPK, ENCFF824GTA, ENCFF924XCI 184822 ENCODE Processing Pipeline 15651a1c0a92804f9536eab9314b760b https://www.encodeproject.org/files/ENCFF424KTS/@@download/ENCFF424KTS.bed.gz hg19 released low read length, borderline replicate concordance, low read depth experiment not submitted to GEO partially characterized antibody ENCFF561OIO bed narrowPeak optimal idr thresholded peaks ENCSR564YYW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF157-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF052QDS, ENCFF079BWH, ENCFF509ZUE 77426 ENCODE Processing Pipeline fe545dc6b547b8633d8506929c4f10f2 https://www.encodeproject.org/files/ENCFF561OIO/@@download/ENCFF561OIO.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF624NUZ bed narrowPeak optimal idr thresholded peaks ENCSR724GSW ChIP-seq EFO:0002067 K562 cell line Homo sapiens SAFB2-human DNA SDS formaldehyde False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF462AIJ, ENCFF985UBC, ENCFF994WPN 1759 ENCODE Processing Pipeline 97e3f1c99bfc96e62aa8bf37eb565906 https://www.encodeproject.org/files/ENCFF624NUZ/@@download/ENCFF624NUZ.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, moderate library complexity experiment not submitted to GEO severe bottlenecking ENCFF314ULQ bed narrowPeak optimal idr thresholded peaks ENCSR530XQI ChIP-seq EFO:0002067 K562 cell line Homo sapiens L3MBTL2-human DNA False 2016-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF471MPD, ENCFF706LNT, ENCFF875ISD 1006532 ENCODE Processing Pipeline 807407007c047f1cd624d59e5aff4373 https://www.encodeproject.org/files/ENCFF314ULQ/@@download/ENCFF314ULQ.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF490ZAU bed narrowPeak optimal idr thresholded peaks ENCSR825MZS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TAF15-human DNA SDS formaldehyde False 2018-01-16 ENCODE 1, 2 ENCFF001TDO, ENCFF137VXT, ENCFF762IGQ, ENCFF853BNC 346126 ENCODE Processing Pipeline 1e317e05556ff5fd386ff3b050195ef3 https://www.encodeproject.org/files/ENCFF490ZAU/@@download/ENCFF490ZAU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF048OIZ bed narrowPeak optimal idr thresholded peaks ENCSR782WRO ChIP-seq EFO:0002067 K562 cell line Homo sapiens BMI1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF186JXU, ENCFF594TUH, ENCFF841ZJM 51870 ENCODE Processing Pipeline 0b13df6bf0e0f44b245b86c92814e49f https://www.encodeproject.org/files/ENCFF048OIZ/@@download/ENCFF048OIZ.bed.gz hg19 released low read length, borderline replicate concordance ENCFF633VCV bed narrowPeak optimal idr thresholded peaks ENCSR782WRO ChIP-seq EFO:0002067 K562 cell line Homo sapiens BMI1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF533JJE, ENCFF585JRW, ENCFF965OFQ 44104 ENCODE Processing Pipeline a3731781debd99421892562f126a3fee https://www.encodeproject.org/files/ENCFF633VCV/@@download/ENCFF633VCV.bed.gz hg19 archived low read length, borderline replicate concordance ENCFF308BSD bed narrowPeak optimal idr thresholded peaks ENCSR950NAZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens LCORL-human DNA False 2017-07-28 ENCODE 3, 4 ENCFF001TDO, ENCFF055OAG, ENCFF215PIH, ENCFF861MQX 191379 ENCODE Processing Pipeline ff1f00b3d10b2d202ab46c6129027dc0 https://www.encodeproject.org/files/ENCFF308BSD/@@download/ENCFF308BSD.bed.gz hg19 released file validation error, antibody characterized with exemption mismatched file status ENCFF221ZIG bed narrowPeak optimal idr thresholded peaks ENCSR131FFJ ChIP-seq EFO:0005723 GM23248 cell line Homo sapiens EZH2-human DNA False 2018-03-09 ENCODE 1, 2 ENCFF001TDO, ENCFF486RTH, ENCFF661PVV, ENCFF878CWL 139515 ENCODE Processing Pipeline 41cd894388403b3786f034d4ed8bfea6 https://www.encodeproject.org/files/ENCFF221ZIG/@@download/ENCFF221ZIG.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption NTR biosample, experiment not submitted to GEO insufficient read depth, poor library complexity, severe bottlenecking ENCFF456FQB bed narrowPeak optimal idr thresholded peaks ENCSR387QUV ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RELB-human DNA False 2017-02-21 ENCODE 1, 2 ENCFF001TDO, ENCFF355VTC, ENCFF747HDW, ENCFF967CAZ 832809 ENCODE Processing Pipeline 6b113719c6955fcab69d5d9844245c7c https://www.encodeproject.org/files/ENCFF456FQB/@@download/ENCFF456FQB.bed.gz hg19 released file validation error, mild to moderate bottlenecking, low read depth, moderate library complexity mismatched file status ENCFF942VHF bed narrowPeak optimal idr thresholded peaks ENCSR769JRS ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-AEBP2-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF270KMF, ENCFF945QWD, ENCFF954VVY 47154 ENCODE Processing Pipeline 70ac5e7f039e839dfbc4fe2ad7dcb2e0 https://www.encodeproject.org/files/ENCFF942VHF/@@download/ENCFF942VHF.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF868QLL bed narrowPeak optimal idr thresholded peaks ENCSR972ZBV ChIP-seq EFO:0002067 K562 cell line Homo sapiens ATF7-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF606UFV, ENCFF611BUY, ENCFF821WIF 855049 ENCODE Processing Pipeline 96c0eed56cbef77b05a368374d122077 https://www.encodeproject.org/files/ENCFF868QLL/@@download/ENCFF868QLL.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF415YPX bed narrowPeak optimal idr thresholded peaks ENCSR632TJQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ILF3-human DNA False 2018-02-14 ENCODE 1, 4 ENCFF001TDO, ENCFF632YKL, ENCFF736TGQ, ENCFF967XPK 90857 ENCODE Processing Pipeline aefb4c3c8bd38bb09052056dc9ef8edd https://www.encodeproject.org/files/ENCFF415YPX/@@download/ENCFF415YPX.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF680WBN bed narrowPeak optimal idr thresholded peaks ENCSR791OZM ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBM25-human DNA SDS formaldehyde False 2018-01-18 ENCODE 1, 2 ENCFF001TDO, ENCFF199EYR, ENCFF681CMB, ENCFF897BPO 854155 ENCODE Processing Pipeline 722400e3eba7df91df323e11a2b0e897 https://www.encodeproject.org/files/ENCFF680WBN/@@download/ENCFF680WBN.bed.gz hg19 released low read length, low read depth, moderate library complexity experiment not submitted to GEO severe bottlenecking ENCFF501NHW bed narrowPeak optimal idr thresholded peaks ENCSR243LNQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens PRPF4-human DNA SDS formaldehyde False 2016-10-31 ENCODE 1, 2 ENCFF001TDO, ENCFF142SFP, ENCFF765SIL, ENCFF912PLZ 72460 ENCODE Processing Pipeline 64bdeef3adca7bd100420e733dd6871b https://www.encodeproject.org/files/ENCFF501NHW/@@download/ENCFF501NHW.bed.gz hg19 released low read length, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF002DBX bed narrowPeak optimal idr thresholded peaks ENCSR000DPP ChIP-seq NTR:0000479 AG09309 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001GWZ, ENCFF001GXC 909696 ENCODE Consortium Analysis Working Group e4c9ca3fd0bbe016c349e411ec6c52e3 https://www.encodeproject.org/files/ENCFF002DBX/@@download/ENCFF002DBX.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms NTR biosample control insufficient read depth, insufficient read depth missing control alignments ENCFF622DUX bed narrowPeak optimal idr thresholded peaks ENCSR000DPP ChIP-seq NTR:0000479 AG09309 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF042OUP, ENCFF299COL, ENCFF437UAR 711204 ENCODE Processing Pipeline 0d3d0dc20ceb418bf2381474049dad66 https://www.encodeproject.org/files/ENCFF622DUX/@@download/ENCFF622DUX.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms NTR biosample control insufficient read depth, insufficient read depth missing control alignments ENCFF418WAW bed narrowPeak optimal idr thresholded peaks ENCSR240PRQ ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens CTCF-human DNA see document see document False 2017-10-19 ENCODE 1, 2 ENCFF001TDO, ENCFF222WLA, ENCFF417KAW, ENCFF963ROK 969434 ENCODE Processing Pipeline 3056834266bad8a9c6e898a1b1c33d74 https://www.encodeproject.org/files/ENCFF418WAW/@@download/ENCFF418WAW.bed.gz hg19 released low read length, mixed run types, antibody characterized with exemption, mixed read lengths NTR biosample, experiment not submitted to GEO ENCFF084DFH bed narrowPeak optimal idr thresholded peaks ENCSR993DED ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF214-human DNA formaldehyde False 2017-11-28 ENCODE 1, 2 ENCFF001TDO, ENCFF055TPM, ENCFF498TWK, ENCFF787GZZ 34025 ENCODE Processing Pipeline 3a0e0dc2218f54a00e40fd395ac02f6d https://www.encodeproject.org/files/ENCFF084DFH/@@download/ENCFF084DFH.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF365WFM bed narrowPeak optimal idr thresholded peaks ENCSR697CUP ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens HCFC1-human DNA False 2016-02-16 ENCODE 1, 3 ENCFF001TDO, ENCFF501NKG, ENCFF701BHY, ENCFF938AEH 239330 ENCODE Processing Pipeline 03b8c0259791519294cbf7103dec34a8 https://www.encodeproject.org/files/ENCFF365WFM/@@download/ENCFF365WFM.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF365ICU bed narrowPeak optimal idr thresholded peaks ENCSR611WZO ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens SREBF2-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF039TDK, ENCFF427ZLR, ENCFF969UCK 95703 ENCODE Processing Pipeline 452936171288c14882683e4db423b6c3 https://www.encodeproject.org/files/ENCFF365ICU/@@download/ENCFF365ICU.bed.gz hg19 released mild to moderate bottlenecking ENCFF116EAM bed narrowPeak optimal idr thresholded peaks ENCSR611WZO ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens SREBF2-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF039TLE, ENCFF406LXU, ENCFF479OQC 81695 ENCODE Processing Pipeline ed61691da991ed1bec05e808964ba7e8 https://www.encodeproject.org/files/ENCFF116EAM/@@download/ENCFF116EAM.bed.gz hg19 archived mild to moderate bottlenecking ENCFF711OSR bed narrowPeak optimal idr thresholded peaks ENCSR439WAF ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens E4F1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF054XUN, ENCFF471IVB, ENCFF717MTX 110065 ENCODE Processing Pipeline f1f2426bc50072ce5eede047ee65a239 https://www.encodeproject.org/files/ENCFF711OSR/@@download/ENCFF711OSR.bed.gz hg19 released mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody ENCFF331KNS bed narrowPeak optimal idr thresholded peaks ENCSR546KCN ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens eGFP-FOSL2-human DNA False 2016-06-13 ENCODE 2, 3 ENCFF001TDO, ENCFF394UVI, ENCFF599OQO, ENCFF927BKR 215108 ENCODE Processing Pipeline c2402f7169a6f5a07c8fb0d492661e49 https://www.encodeproject.org/files/ENCFF331KNS/@@download/ENCFF331KNS.bed.gz hg19 released low read depth, missing genetic modification characterization ENCFF898FAQ bed narrowPeak optimal idr thresholded peaks ENCSR737UST ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF740-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF188UYW, ENCFF233FOV, ENCFF903FBL 124815 ENCODE Processing Pipeline e289ccf3c9b78c0755899343b35f0f61 https://www.encodeproject.org/files/ENCFF898FAQ/@@download/ENCFF898FAQ.bed.gz hg19 released missing genetic modification characterization ENCFF950HDR bed narrowPeak optimal idr thresholded peaks ENCSR859JGF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ATM-human DNA False 2017-05-18 ENCODE 1, 2 ENCFF001TDO, ENCFF017ACO, ENCFF428ZAR, ENCFF476ETP 40652 ENCODE Processing Pipeline 032254b87245bb0691cb552e012826b6 https://www.encodeproject.org/files/ENCFF950HDR/@@download/ENCFF950HDR.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF355MAL bed narrowPeak optimal idr thresholded peaks ENCSR217WRC ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-TSHZ1-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF581YXY, ENCFF831UOD, ENCFF981KKC 226849 ENCODE Processing Pipeline eb53a8a15dad4f1cb4fd57d7c2735e59 https://www.encodeproject.org/files/ENCFF355MAL/@@download/ENCFF355MAL.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF981API bed narrowPeak optimal idr thresholded peaks ENCSR233MWH ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF670-human DNA formaldehyde False 2016-12-19 ENCODE 2, 3 ENCFF001TDO, ENCFF187APX, ENCFF190LGZ, ENCFF710OUS 26053 ENCODE Processing Pipeline adba185066ef573f0237eb2fb038a40d https://www.encodeproject.org/files/ENCFF981API/@@download/ENCFF981API.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF010JWV bed narrowPeak optimal idr thresholded peaks ENCSR363XBR ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF488-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF248RLW, ENCFF416SHN, ENCFF750QCA 65094 ENCODE Processing Pipeline 5cad01fa427ee398153aa3cd9bdd4e48 https://www.encodeproject.org/files/ENCFF010JWV/@@download/ENCFF010JWV.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF303PMJ bed narrowPeak optimal idr thresholded peaks ENCSR635EXI ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZSCAN29-human DNA False 2017-11-20 ENCODE 1, 3 ENCFF001TDO, ENCFF259GFJ, ENCFF301MWW, ENCFF959BCM 105003 ENCODE Processing Pipeline d1ef6c0a0056c7d72b674fe178969dd2 https://www.encodeproject.org/files/ENCFF303PMJ/@@download/ENCFF303PMJ.bed.gz hg19 released experiment not submitted to GEO ENCFF045LTC bed narrowPeak optimal idr thresholded peaks ENCSR707BNG ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-MYNN-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF103OUL, ENCFF499XUD, ENCFF804ZPQ 133070 ENCODE Processing Pipeline 78e40931e1277871066a6dd063f55dca https://www.encodeproject.org/files/ENCFF045LTC/@@download/ENCFF045LTC.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF405NFV bed narrowPeak optimal idr thresholded peaks ENCSR739IHN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TBX21-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF096FPV, ENCFF869HSY, ENCFF902EUL 684545 ENCODE Processing Pipeline fce6b7bb691da8b4efbb92e321b433a9 https://www.encodeproject.org/files/ENCFF405NFV/@@download/ENCFF405NFV.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF751DRF bed narrowPeak optimal idr thresholded peaks ENCSR897ZXU ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens E2F8-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF093MAU, ENCFF226PXS, ENCFF262ETY 45000 ENCODE Processing Pipeline c3e581d5c27bb0218e2a3c4578ef20bf https://www.encodeproject.org/files/ENCFF751DRF/@@download/ENCFF751DRF.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF901JLS bed narrowPeak optimal idr thresholded peaks ENCSR185FOY ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF341-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF431WDE, ENCFF615MVD, ENCFF747KPL 718637 ENCODE Processing Pipeline 73c507dbf8f91c8da842a5f5aab53303 https://www.encodeproject.org/files/ENCFF901JLS/@@download/ENCFF901JLS.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF602FRL bed narrowPeak optimal idr thresholded peaks ENCSR315NNL ChIP-seq EFO:0002067 K562 cell line Homo sapiens CHAMP1-human DNA False 2017-11-14 ENCODE 1, 3 ENCFF001TDO, ENCFF363BOT, ENCFF553YOE, ENCFF689MDM 128718 ENCODE Processing Pipeline dd9c4a07d4caf38439993da0495bcfc5 https://www.encodeproject.org/files/ENCFF602FRL/@@download/ENCFF602FRL.bed.gz hg19 released low read depth experiment not submitted to GEO ENCFF452SVO bed narrowPeak optimal idr thresholded peaks ENCSR068VRA ChIP-seq EFO:0002067 K562 cell line Homo sapiens MCM7-human DNA False 2018-02-14 ENCODE 1, 2 ENCFF001TDO, ENCFF228DXI, ENCFF258OQI, ENCFF272DJX 54084 ENCODE Processing Pipeline fca29f9dbc82e6d3e889b2552c4d53bd https://www.encodeproject.org/files/ENCFF452SVO/@@download/ENCFF452SVO.bed.gz hg19 released borderline replicate concordance experiment not submitted to GEO ENCFF911KCB bed narrowPeak optimal idr thresholded peaks ENCSR330ADN ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens DDX20-human DNA False 2017-06-29 ENCODE 1, 2 ENCFF001TDO, ENCFF020VZO, ENCFF900OFB, ENCFF918SQP 57737 ENCODE Processing Pipeline 6433f12ca8b1f18915b729c7301e77e4 https://www.encodeproject.org/files/ENCFF911KCB/@@download/ENCFF911KCB.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance ENCFF007ATC bed narrowPeak optimal idr thresholded peaks ENCSR520VTO ChIP-seq EFO:0005907 OCI-LY1 cell line Homo sapiens EZH2-human DNA see document see document False 2017-11-19 ENCODE 1, 2 ENCFF001TDO, ENCFF017WDB, ENCFF419TOT, ENCFF474LJV 3218 ENCODE Processing Pipeline 8ca2251e458ef9a0aea0ba9d03b41b8e https://www.encodeproject.org/files/ENCFF007ATC/@@download/ENCFF007ATC.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, mixed run types, low read depth, antibody characterized with exemption, mixed read lengths NTR biosample, experiment not submitted to GEO ENCFF177JFZ bed narrowPeak optimal idr thresholded peaks ENCSR864VJE ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZSCAN16-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF244UCV, ENCFF877WIO, ENCFF905OAJ 139399 ENCODE Processing Pipeline fedea1dd8687d6a9b0501486b61df292 https://www.encodeproject.org/files/ENCFF177JFZ/@@download/ENCFF177JFZ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF753PSY bed narrowPeak optimal idr thresholded peaks ENCSR619OUC ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB6-human DNA formaldehyde False 2017-11-30 ENCODE 1, 2 ENCFF001TDO, ENCFF177QXR, ENCFF914HFS, ENCFF918LYX 269141 ENCODE Processing Pipeline c4ba1b07a13451f76bf22cd7e718df82 https://www.encodeproject.org/files/ENCFF753PSY/@@download/ENCFF753PSY.bed.gz hg19 released missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF467FLP bed narrowPeak optimal idr thresholded peaks ENCSR217HTK ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ATF2-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF084JTV, ENCFF310IPF, ENCFF853GEN 546809 ENCODE Processing Pipeline 6c3d2167f964abff217e3bbc5008c950 https://www.encodeproject.org/files/ENCFF467FLP/@@download/ENCFF467FLP.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF234YTK bed narrowPeak optimal idr thresholded peaks ENCSR418MKG ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF692-human DNA formaldehyde False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF056ABC, ENCFF206AFW, ENCFF715SOH 649257 ENCODE Processing Pipeline 5c3aa6a5fe07ea87c2fdf2eed13167e6 https://www.encodeproject.org/files/ENCFF234YTK/@@download/ENCFF234YTK.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF544NXC bed narrowPeak optimal idr thresholded peaks ENCSR936XTK ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF143-human DNA False 2016-07-28 ENCODE 2, 3 ENCFF001TDO, ENCFF114HTB, ENCFF405WZX, ENCFF648GNP 570474 ENCODE Processing Pipeline b1e487a875b568f4b5945bd06240fbe7 https://www.encodeproject.org/files/ENCFF544NXC/@@download/ENCFF544NXC.bed.gz hg19 released mild to moderate bottlenecking mismatched file status ENCFF454YSP bed narrowPeak optimal idr thresholded peaks ENCSR365DQH ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF211-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF466FRV, ENCFF773OIA, ENCFF831NSD 38007 ENCODE Processing Pipeline 4f3f6f5e322490bed118e9a3ea1d3a3d https://www.encodeproject.org/files/ENCFF454YSP/@@download/ENCFF454YSP.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF757YVY bed narrowPeak optimal idr thresholded peaks ENCSR664OKA ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens ELK1-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF147QXV, ENCFF306SXM, ENCFF577IGI 11970 ENCODE Processing Pipeline f018341d3a30509fa7fc898006745013 https://www.encodeproject.org/files/ENCFF757YVY/@@download/ENCFF757YVY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity duplicate lane review ENCFF586KIH bed narrowPeak optimal idr thresholded peaks ENCSR000AHD ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF664CSQ, ENCFF762LDF, ENCFF768KKE 916340 ENCODE Processing Pipeline 5a8e504b171a26058efc3a830eef1183 https://www.encodeproject.org/files/ENCFF586KIH/@@download/ENCFF586KIH.bed.gz hg19 released mild to moderate bottlenecking, low read depth ENCFF140MVM bed narrowPeak optimal idr thresholded peaks ENCSR069DPL ChIP-seq NTR:0000711 neural progenitor cell in vitro differentiated cells Homo sapiens EZH2-human DNA False 2017-11-16 ENCODE 1, 2 ENCFF001TDO, ENCFF006UUP, ENCFF024LWI, ENCFF483PBA 443965 ENCODE Processing Pipeline 32b5d01223cb50a1a20a210ec3c20256 https://www.encodeproject.org/files/ENCFF140MVM/@@download/ENCFF140MVM.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF247GZH bed narrowPeak optimal idr thresholded peaks ENCSR072EUE ChIP-seq EFO:0005907 OCI-LY1 cell line Homo sapiens CTCF-human DNA see document see document False 2017-11-13 ENCODE 1, 2 ENCFF001TDO, ENCFF210LCR, ENCFF827ONU, ENCFF990HKP 897307 ENCODE Processing Pipeline 9500ee7049128a297fadb6618bc4d112 https://www.encodeproject.org/files/ENCFF247GZH/@@download/ENCFF247GZH.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity, mixed read lengths, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF985TSH bed narrowPeak optimal idr thresholded peaks ENCSR815ZDS ChIP-seq EFO:0002067 K562 cell line Homo sapiens SREBF1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF554XAI, ENCFF716GBZ, ENCFF826WTJ 53139 ENCODE Processing Pipeline 5d034408cc2d73bb6d706caeaaeeb6ae https://www.encodeproject.org/files/ENCFF985TSH/@@download/ENCFF985TSH.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF890YEO bed narrowPeak optimal idr thresholded peaks ENCSR815ZDS ChIP-seq EFO:0002067 K562 cell line Homo sapiens SREBF1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF085MZN, ENCFF405AOP, ENCFF916KLD 46140 ENCODE Processing Pipeline c0e06ca08ca05f128423079002568224 https://www.encodeproject.org/files/ENCFF890YEO/@@download/ENCFF890YEO.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF312RFN bed narrowPeak optimal idr thresholded peaks ENCSR888XZK ChIP-seq EFO:0002067 K562 cell line Homo sapiens TCF7L2-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF060XZX, ENCFF274DVQ, ENCFF975NRI 34454 ENCODE Processing Pipeline 0d2abc09baae3bbab2319c87770d5ba6 https://www.encodeproject.org/files/ENCFF312RFN/@@download/ENCFF312RFN.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF884RAO bed narrowPeak optimal idr thresholded peaks ENCSR231ENE ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ARID3A-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF041CMD, ENCFF500TQK, ENCFF749YOZ 28997 ENCODE Processing Pipeline e9107d75716f1b238516c9e39715ad08 https://www.encodeproject.org/files/ENCFF884RAO/@@download/ENCFF884RAO.bed.gz hg19 released borderline replicate concordance ENCFF171TPH bed narrowPeak optimal idr thresholded peaks ENCSR768LIO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-OVOL3-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF012MDL, ENCFF105EGQ, ENCFF790WRT 183775 ENCODE Processing Pipeline d7d457fb6d56ebdbbfec19292992083d https://www.encodeproject.org/files/ENCFF171TPH/@@download/ENCFF171TPH.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF060MLS bed narrowPeak optimal idr thresholded peaks ENCSR487LUQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens PHF8-human DNA False 2018-03-05 ENCODE 1, 2 ENCFF001TDO, ENCFF134YYB, ENCFF291RVB, ENCFF723MLM 109181 ENCODE Processing Pipeline 52abfc24697bfc447f22344fa5dba7dd https://www.encodeproject.org/files/ENCFF060MLS/@@download/ENCFF060MLS.bed.gz hg19 released low read length, borderline replicate concordance, antibody characterized with exemption experiment not submitted to GEO ENCFF015PGM bed narrowPeak optimal idr thresholded peaks ENCSR788XNX ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens RFX1-human DNA False 2016-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF270NHR, ENCFF633FJC, ENCFF736XAR 253341 ENCODE Processing Pipeline 1ab6521ee737225dbeff8ca8348955fb https://www.encodeproject.org/files/ENCFF015PGM/@@download/ENCFF015PGM.bed.gz hg19 released low read depth ENCFF955KTW bed narrowPeak optimal idr thresholded peaks ENCSR134QIE ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZFP3-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF212LGF, ENCFF446PBM, ENCFF939WOL 89312 ENCODE Processing Pipeline 069fc2636317e8f1ee2f55a11e270093 https://www.encodeproject.org/files/ENCFF955KTW/@@download/ENCFF955KTW.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF688VHI bed narrowPeak optimal idr thresholded peaks ENCSR356ECR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RBM22-human DNA SDS formaldehyde False 2017-08-17 ENCODE 1, 2 ENCFF001TDO, ENCFF231NZX, ENCFF540AOE, ENCFF835IHR 640728 ENCODE Processing Pipeline fc924e265574d49d0e9bb5225bd229c0 https://www.encodeproject.org/files/ENCFF688VHI/@@download/ENCFF688VHI.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity ENCFF589WFG bed narrowPeak optimal idr thresholded peaks ENCSR927UJQ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB1-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF061GEN, ENCFF443VIO, ENCFF703KWO 111473 ENCODE Processing Pipeline 7fd85371cabe5e28bd179a02d76f11de https://www.encodeproject.org/files/ENCFF589WFG/@@download/ENCFF589WFG.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF318QLK bed narrowPeak optimal idr thresholded peaks ENCSR882ICT ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens ZNF384-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF407DGA, ENCFF930CXT, ENCFF943FOK 324419 ENCODE Processing Pipeline a9c5e13520aed738df7f24f3f65c52fe https://www.encodeproject.org/files/ENCFF318QLK/@@download/ENCFF318QLK.bed.gz hg19 released ENCFF044IYC bed narrowPeak optimal idr thresholded peaks ENCSR466VYP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF266-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF352WWL, ENCFF558IHL, ENCFF730BUV 98535 ENCODE Processing Pipeline 00877a97c603db3f117a999a4ba2cadc https://www.encodeproject.org/files/ENCFF044IYC/@@download/ENCFF044IYC.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF732SYV bed narrowPeak optimal idr thresholded peaks ENCSR141PZA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-SP3-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF476ONF, ENCFF480EFN, ENCFF678AGF 547710 ENCODE Processing Pipeline 7a908a7a2e4a13b0fef8a764c1c70d45 https://www.encodeproject.org/files/ENCFF732SYV/@@download/ENCFF732SYV.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF932ANQ bed narrowPeak optimal idr thresholded peaks ENCSR041ZIQ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-SALL1-human DNA formaldehyde False 2016-12-13 ENCODE 1, 2 ENCFF001TDO, ENCFF231QHZ, ENCFF547ASW, ENCFF689KIF 37062 ENCODE Processing Pipeline f0834a4f2c674fca19bafa3de3faedf9 https://www.encodeproject.org/files/ENCFF932ANQ/@@download/ENCFF932ANQ.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF287ORE bed narrowPeak optimal idr thresholded peaks ENCSR042TWZ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens SNIP1-human DNA False 2017-06-23 ENCODE 1, 2 ENCFF001TDO, ENCFF012TME, ENCFF689XKH, ENCFF749UEV 68038 ENCODE Processing Pipeline 82dd3d27f3266ae674d6b855a13c6937 https://www.encodeproject.org/files/ENCFF287ORE/@@download/ENCFF287ORE.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity ENCFF714VJU bed narrowPeak optimal idr thresholded peaks ENCSR711UOA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF837-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF298TZR, ENCFF558KUD, ENCFF589HSY 47055 ENCODE Processing Pipeline 9b90f20605ad9b94682bfff1a44442fa https://www.encodeproject.org/files/ENCFF714VJU/@@download/ENCFF714VJU.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF178LCE bed narrowPeak optimal idr thresholded peaks ENCSR912ATU ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF217-human DNA False 2017-11-13 ENCODE 2, 3 ENCFF001TDO, ENCFF176ZIJ, ENCFF740DFA, ENCFF988SMP 59384 ENCODE Processing Pipeline 615eeee00b09b2d3f598326eb3bee61d https://www.encodeproject.org/files/ENCFF178LCE/@@download/ENCFF178LCE.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption experiment not submitted to GEO ENCFF344OJI bed narrowPeak optimal idr thresholded peaks ENCSR205SKQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens YBX1-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF009QEI, ENCFF015RED, ENCFF019TVN 44947 ENCODE Processing Pipeline 8f76cd4eaefe9893f5ed8affc6e9a2ad https://www.encodeproject.org/files/ENCFF344OJI/@@download/ENCFF344OJI.bed.gz hg19 released file validation error, borderline replicate concordance, antibody characterized with exemption mismatched file status ENCFF935HIG bed narrowPeak optimal idr thresholded peaks ENCSR145XQO ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens HDGF-human DNA False 2016-08-24 ENCODE 1, 2 ENCFF001TDO, ENCFF432SFP, ENCFF637CIX, ENCFF816GZA 401608 ENCODE Processing Pipeline 10e3149096e5eb728da6251a011656f6 https://www.encodeproject.org/files/ENCFF935HIG/@@download/ENCFF935HIG.bed.gz hg19 released file validation error, antibody characterized with exemption mismatched file status ENCFF559OMC bed narrowPeak optimal idr thresholded peaks ENCSR228PGT ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF292-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF453AYJ, ENCFF820PMN, ENCFF823KCQ 34938 ENCODE Processing Pipeline a5f8a4448413a15795d3d783fe3e7840 https://www.encodeproject.org/files/ENCFF559OMC/@@download/ENCFF559OMC.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization missing control alignments ENCFF338QWU bed narrowPeak optimal idr thresholded peaks ENCSR966ULI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-PATZ1-human DNA formaldehyde False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF480YPV, ENCFF504DVB, ENCFF946RUB 735746 ENCODE Processing Pipeline 72d478c8b0e61a5f2f121643a21a699f https://www.encodeproject.org/files/ENCFF338QWU/@@download/ENCFF338QWU.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF699WXF bed narrowPeak optimal idr thresholded peaks ENCSR163RYW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF189-human DNA formaldehyde False 2017-11-28 ENCODE 1, 2 ENCFF001TDO, ENCFF269RYL, ENCFF413EHT, ENCFF947TJN 722459 ENCODE Processing Pipeline 2f6121f1ed8a7ad4d2b643597ec02f37 https://www.encodeproject.org/files/ENCFF699WXF/@@download/ENCFF699WXF.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF545SII bed narrowPeak optimal idr thresholded peaks ENCSR461ZJT ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF501-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF292ASM, ENCFF943IGS, ENCFF953MKM 425914 ENCODE Processing Pipeline 5ba920c75ba258c883b55b0590ceedef https://www.encodeproject.org/files/ENCFF545SII/@@download/ENCFF545SII.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF359IPV bed narrowPeak optimal idr thresholded peaks ENCSR124AIG ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens FOS-human DNA False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF332EWZ, ENCFF522TKF, ENCFF714YWI 579404 ENCODE Processing Pipeline 8fe42a8e0c96a42da9a055e03e58aed6 https://www.encodeproject.org/files/ENCFF359IPV/@@download/ENCFF359IPV.bed.gz hg19 released low read length, low read depth duplicate lane review ENCFF581ZZT bed narrowPeak optimal idr thresholded peaks ENCSR742TMU ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF282-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF313WJM, ENCFF603AEE, ENCFF802MWF 244445 ENCODE Processing Pipeline 1ee0c43847b45d2db7e83b4bc1c076d2 https://www.encodeproject.org/files/ENCFF581ZZT/@@download/ENCFF581ZZT.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF550UEU bed narrowPeak optimal idr thresholded peaks ENCSR760UKJ ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens ARNT-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF121FBN, ENCFF139FWO, ENCFF715GDR 98682 ENCODE Processing Pipeline 813259a064946656fcfdc88f1bede48e https://www.encodeproject.org/files/ENCFF550UEU/@@download/ENCFF550UEU.bed.gz hg19 released mild to moderate bottlenecking ENCFF444QJT bed narrowPeak optimal idr thresholded peaks ENCSR565XSL ChIP-seq EFO:0006711 OCI-LY7 cell line Homo sapiens EZH2phosphoT487-human DNA see document see document False 2018-02-06 ENCODE 1, 2 ENCFF001TDO, ENCFF283OGT, ENCFF502WVO, ENCFF750MDG 24131 ENCODE Processing Pipeline e9c7996dbbdf5f9133abc392aadbdfe7 https://www.encodeproject.org/files/ENCFF444QJT/@@download/ENCFF444QJT.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, mixed run types, low read depth, antibody characterized with exemption, mixed read lengths NTR biosample, experiment not submitted to GEO ENCFF304IDM bed narrowPeak optimal idr thresholded peaks ENCSR265ARE ChIP-seq EFO:0007752 VCaP cell line Homo sapiens CTCF-human DNA False 2017-07-21 ENCODE 1, 2 ENCFF001TDO, ENCFF247RAX, ENCFF514JGP, ENCFF536CTG 1543624 ENCODE Processing Pipeline 56d93fec54a90ac5c5269b5284cc2f20 https://www.encodeproject.org/files/ENCFF304IDM/@@download/ENCFF304IDM.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF290YYY bed narrowPeak optimal idr thresholded peaks ENCSR689YFA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF146-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF708UJT, ENCFF830EGQ, ENCFF971RUU 652380 ENCODE Processing Pipeline 066f05eafb0304225406a602a469089b https://www.encodeproject.org/files/ENCFF290YYY/@@download/ENCFF290YYY.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF561WNI bed narrowPeak optimal idr thresholded peaks ENCSR197ALX ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDGF-human DNA False 2016-08-05 ENCODE 1, 2 ENCFF001TDO, ENCFF264KUV, ENCFF385LTD, ENCFF409HKO 176911 ENCODE Processing Pipeline 938fcbd1e3573ad84cdb46925b19eb89 https://www.encodeproject.org/files/ENCFF561WNI/@@download/ENCFF561WNI.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF519CSQ bed narrowPeak optimal idr thresholded peaks ENCSR517DDU ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF48-human DNA formaldehyde False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF348SEZ, ENCFF661WDY, ENCFF865ZED 12075 ENCODE Processing Pipeline f4f9f84a3b03e3cd8df109413a03acad https://www.encodeproject.org/files/ENCFF519CSQ/@@download/ENCFF519CSQ.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF516AJC bed narrowPeak optimal idr thresholded peaks ENCSR597VGC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ETV6-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF831JVY, ENCFF862QRJ, ENCFF959JZX 74606 ENCODE Processing Pipeline 316374d55e9babf8e309648be088e6f9 https://www.encodeproject.org/files/ENCFF516AJC/@@download/ENCFF516AJC.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity ENCFF304WER bed narrowPeak optimal idr thresholded peaks ENCSR597VGC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ETV6-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF223SSQ, ENCFF229JRX, ENCFF619OWB 60721 ENCODE Processing Pipeline 03d66d5223fdbf6557b9ae28d5174c0f https://www.encodeproject.org/files/ENCFF304WER/@@download/ENCFF304WER.bed.gz hg19 archived mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity ENCFF451RKK bed narrowPeak optimal idr thresholded peaks ENCSR557JTZ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens GTF2F1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF331EWI, ENCFF376IUM, ENCFF601FJF 214449 ENCODE Processing Pipeline 2f9f6a2c05c6da3570536da4a30e062d https://www.encodeproject.org/files/ENCFF451RKK/@@download/ENCFF451RKK.bed.gz hg19 released ENCFF456LHH bed narrowPeak optimal idr thresholded peaks ENCSR557JTZ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens GTF2F1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF361MVW, ENCFF380LCN, ENCFF603JPR 177487 ENCODE Processing Pipeline 282ae8a3ddad3adf5de6b086f9682c33 https://www.encodeproject.org/files/ENCFF456LHH/@@download/ENCFF456LHH.bed.gz hg19 archived ENCFF812UZP bed narrowPeak optimal idr thresholded peaks ENCSR452YHM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SIN3B-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF066XXM, ENCFF223NIO, ENCFF739VAD 106548 ENCODE Processing Pipeline a3fbb250e7e665f3d0ad0df37e9a2557 https://www.encodeproject.org/files/ENCFF812UZP/@@download/ENCFF812UZP.bed.gz hg19 released low read length ENCFF423RVT bed narrowPeak optimal idr thresholded peaks ENCSR452YHM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SIN3B-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF781QFB, ENCFF813QEI, ENCFF960PIA 90832 ENCODE Processing Pipeline 3f4887fde95048df756c56997b111299 https://www.encodeproject.org/files/ENCFF423RVT/@@download/ENCFF423RVT.bed.gz hg19 archived low read length ENCFF282AEY bed narrowPeak optimal idr thresholded peaks ENCSR623KNM ChIP-seq EFO:0001086 A549 cell line Homo sapiens ELK1-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF044AVI, ENCFF056BGC, ENCFF294MMU 9345 ENCODE Processing Pipeline 406629fca7d1601a984475d602c7c8cb https://www.encodeproject.org/files/ENCFF282AEY/@@download/ENCFF282AEY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance duplicate lane review ENCFF503AZK bed narrowPeak optimal idr thresholded peaks ENCSR337NWW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HDAC2-human DNA False 2016-10-14 ENCODE 1, 2 ENCFF001TDO, ENCFF514KXZ, ENCFF686QQS, ENCFF973BDU 122502 ENCODE Processing Pipeline 524e5189e3cc154582971252084975a0 https://www.encodeproject.org/files/ENCFF503AZK/@@download/ENCFF503AZK.bed.gz hg19 released ENCFF981AWT bed narrowPeak optimal idr thresholded peaks ENCSR550ZZK ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF493-human DNA formaldehyde False 2016-12-19 ENCODE 1, 2 ENCFF001TDO, ENCFF103UAV, ENCFF126FCR, ENCFF959HCA 34835 ENCODE Processing Pipeline f3062171677e2505ee6a6742d0ad2f90 https://www.encodeproject.org/files/ENCFF981AWT/@@download/ENCFF981AWT.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF033BDT bed narrowPeak optimal idr thresholded peaks ENCSR419KSZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NCOR1-human DNA False 2017-03-13 ENCODE 1, 2 ENCFF001TDO, ENCFF418EHB, ENCFF835BHM, ENCFF865EDO 425988 ENCODE Processing Pipeline adb45f94576c907fd380d8a5a4defd4a https://www.encodeproject.org/files/ENCFF033BDT/@@download/ENCFF033BDT.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, antibody characterized with exemption experiment not submitted to GEO ENCFF834YMY bed narrowPeak optimal idr thresholded peaks ENCSR768HOH ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF324-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF408KGT, ENCFF609TCH, ENCFF731DSK 312120 ENCODE Processing Pipeline ba9e037cc3c923f73acb0b7e1c7646ed https://www.encodeproject.org/files/ENCFF834YMY/@@download/ENCFF834YMY.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF168INE bed narrowPeak optimal idr thresholded peaks ENCSR168SMX ChIP-seq UBERON:0002107 liver tissue Homo sapiens NR2F2-human DNA False 2016-08-18 ENCODE 1, 2 ENCFF001TDO, ENCFF411FEE, ENCFF491JFL, ENCFF615HHV 690741 ENCODE Processing Pipeline 75a88e99090b799ce8034d216030b7e7 https://www.encodeproject.org/files/ENCFF168INE/@@download/ENCFF168INE.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF043HEN bed narrowPeak optimal idr thresholded peaks ENCSR168SMX ChIP-seq UBERON:0002107 liver tissue Homo sapiens NR2F2-human DNA False 2016-08-18 ENCODE 1, 2 ENCFF001TDO, ENCFF414TMK, ENCFF517GNM, ENCFF703VGN 611435 ENCODE Processing Pipeline 0fd15e7d5d5cb7811e831ffc2fd6b812 https://www.encodeproject.org/files/ENCFF043HEN/@@download/ENCFF043HEN.bed.gz hg19 archived antibody characterized with exemption biological replicates with identical biosample ENCFF948TXN bed narrowPeak optimal idr thresholded peaks ENCSR077DKV ChIP-seq EFO:0002067 K562 cell line Homo sapiens CREM-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF045SMN, ENCFF357OAA, ENCFF477IXW 627991 ENCODE Processing Pipeline faf8f9d6ef509ef17dd410cd21d30238 https://www.encodeproject.org/files/ENCFF948TXN/@@download/ENCFF948TXN.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF990CFV bed narrowPeak optimal idr thresholded peaks ENCSR364SNE ChIP-seq EFO:0002067 K562 cell line Homo sapiens POU5F1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF272EQO, ENCFF705MDG, ENCFF768INF 41921 ENCODE Processing Pipeline 8be2419d12baba94256451bb4acfde78 https://www.encodeproject.org/files/ENCFF990CFV/@@download/ENCFF990CFV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance experiment not submitted to GEO partially characterized antibody ENCFF647NDG bed narrowPeak optimal idr thresholded peaks ENCSR780ESQ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-KLF14-human DNA formaldehyde False 2018-01-29 ENCODE 1, 2 ENCFF001TDO, ENCFF357FQB, ENCFF426PHX, ENCFF748IWA 255529 ENCODE Processing Pipeline f01ebd451ce58a04df2ecacadd6c51d6 https://www.encodeproject.org/files/ENCFF647NDG/@@download/ENCFF647NDG.bed.gz hg19 released missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF819CJP bed narrowPeak optimal idr thresholded peaks ENCSR070HWF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF768-human DNA formaldehyde False 2018-01-29 ENCODE 1, 2 ENCFF001TDO, ENCFF149YMO, ENCFF812ITJ, ENCFF902JQV 144016 ENCODE Processing Pipeline 2156fdda2e2fc6c76ba2aefcabee04b0 https://www.encodeproject.org/files/ENCFF819CJP/@@download/ENCFF819CJP.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF651LIG bed narrowPeak optimal idr thresholded peaks ENCSR352QSB ChIP-seq UBERON:0002107 liver tissue Homo sapiens RXRA-human DNA False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF020HWP, ENCFF328XQD, ENCFF458DFL 950321 ENCODE Processing Pipeline c598205029cccfb7ff103ac57aaddb1e https://www.encodeproject.org/files/ENCFF651LIG/@@download/ENCFF651LIG.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample, experiment not submitted to GEO ENCFF030UCM bed narrowPeak optimal idr thresholded peaks ENCSR559IOZ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZXDB-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF003IXO, ENCFF183ZGX, ENCFF322OJB 678456 ENCODE Processing Pipeline aff53e270d5d2fec994de04a47f1108c https://www.encodeproject.org/files/ENCFF030UCM/@@download/ENCFF030UCM.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF067LIW bed narrowPeak optimal idr thresholded peaks ENCSR138SFL ChIP-seq EFO:0002067 K562 cell line Homo sapiens MCM2-human DNA False 2017-11-13 ENCODE 1, 3 ENCFF001TDO, ENCFF618BMZ, ENCFF640CQW, ENCFF741JEM 8712 ENCODE Processing Pipeline 3eb34480957ee92672d0d8d3fcf633bc https://www.encodeproject.org/files/ENCFF067LIW/@@download/ENCFF067LIW.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth experiment not submitted to GEO ENCFF127RVQ bed narrowPeak optimal idr thresholded peaks ENCSR897JAS ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CREB1-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF351PGN, ENCFF521INM, ENCFF634HLA 881747 ENCODE Processing Pipeline 2f0a214c3caca2c724991bc88dc1434a https://www.encodeproject.org/files/ENCFF127RVQ/@@download/ENCFF127RVQ.bed.gz hg19 released ENCFF775EAL bed narrowPeak optimal idr thresholded peaks ENCSR017QBI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF600-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF377KPG, ENCFF541BRL, ENCFF598AUH 912187 ENCODE Processing Pipeline a75bd4616bd12df4785d4ebf9370b90f https://www.encodeproject.org/files/ENCFF775EAL/@@download/ENCFF775EAL.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF353QLW bed narrowPeak optimal idr thresholded peaks ENCSR449UFF ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZKSCAN1-human DNA False 2016-06-14 ENCODE 3, 4 ENCFF001TDO, ENCFF013VWS, ENCFF216ONL, ENCFF387UKV 117342 ENCODE Processing Pipeline fa969ad37ed6d708c5126ca4cbe28e79 https://www.encodeproject.org/files/ENCFF353QLW/@@download/ENCFF353QLW.bed.gz hg19 released ENCFF362XAG bed narrowPeak optimal idr thresholded peaks ENCSR360JOC ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CHD1-human DNA False 2016-07-28 ENCODE 1, 3 ENCFF001TDO, ENCFF171XBN, ENCFF715GRP, ENCFF902LLC 219139 ENCODE Processing Pipeline e075079762d0dffe01cc1edb2a6c3d5e https://www.encodeproject.org/files/ENCFF362XAG/@@download/ENCFF362XAG.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF150TBK bed narrowPeak optimal idr thresholded peaks ENCSR066TET ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens RFX1-human DNA False 2016-06-23 ENCODE 1, 3 ENCFF001TDO, ENCFF128GZH, ENCFF367XOV, ENCFF588ODL 483003 ENCODE Processing Pipeline 3b7244abb3c710105e4641632bb37970 https://www.encodeproject.org/files/ENCFF150TBK/@@download/ENCFF150TBK.bed.gz hg19 released mild to moderate bottlenecking ENCFF902IMW bed narrowPeak optimal idr thresholded peaks ENCSR109ODF ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens HES1-human DNA False 2017-04-14 ENCODE 1, 2 ENCFF001TDO, ENCFF609EET, ENCFF779NYR, ENCFF794UGE 92144 ENCODE Processing Pipeline 45232ad38904dc1dbab3a90de46e8176 https://www.encodeproject.org/files/ENCFF902IMW/@@download/ENCFF902IMW.bed.gz hg19 released ENCFF827BDM bed narrowPeak optimal idr thresholded peaks ENCSR727PIC ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF34-human DNA formaldehyde False 2017-03-07 ENCODE 1, 2 ENCFF001TDO, ENCFF620FTP, ENCFF647BJJ, ENCFF868JZD 179319 ENCODE Processing Pipeline 78db4a8aaa237056c96f17d07110cb75 https://www.encodeproject.org/files/ENCFF827BDM/@@download/ENCFF827BDM.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization, inconsistent platforms, moderate library complexity missing control alignments ENCFF273EYJ bed narrowPeak optimal idr thresholded peaks ENCSR283ZRI ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2G-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF102MCA, ENCFF663NYD, ENCFF791LFD 1024718 ENCODE Processing Pipeline facef1e10b493fe42f62e65a2683f47b https://www.encodeproject.org/files/ENCFF273EYJ/@@download/ENCFF273EYJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption experiment not submitted to GEO ENCFF443TBN bed narrowPeak optimal idr thresholded peaks ENCSR859RAO ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-YY1-human DNA formaldehyde False 2018-01-29 ENCODE 1, 2 ENCFF001TDO, ENCFF210FOA, ENCFF365RUW, ENCFF599QYZ 236976 ENCODE Processing Pipeline d07eeb5116ce214001f5aaa3cc7274c9 https://www.encodeproject.org/files/ENCFF443TBN/@@download/ENCFF443TBN.bed.gz hg19 released missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF834ZRT bed narrowPeak optimal idr thresholded peaks ENCSR290SSQ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-MAZ-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF165LZH, ENCFF750XWP, ENCFF927IQD 778063 ENCODE Processing Pipeline 4e8f99f86dfa403b7253444d80ff5788 https://www.encodeproject.org/files/ENCFF834ZRT/@@download/ENCFF834ZRT.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization missing control alignments ENCFF582YPB bed narrowPeak optimal idr thresholded peaks ENCSR109YGM ChIP-seq EFO:0002067 K562 cell line Homo sapiens CREB3L1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF695WCL, ENCFF896HIP, ENCFF914GVW 407528 ENCODE Processing Pipeline ce5c6d573337c277ed2ac7ed78cb3eed https://www.encodeproject.org/files/ENCFF582YPB/@@download/ENCFF582YPB.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity ENCFF708GFU bed narrowPeak optimal idr thresholded peaks ENCSR109YGM ChIP-seq EFO:0002067 K562 cell line Homo sapiens CREB3L1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF596CWP, ENCFF719MEC, ENCFF893FDT 344465 ENCODE Processing Pipeline a0e276147e2f327c48369ebaaa3944d4 https://www.encodeproject.org/files/ENCFF708GFU/@@download/ENCFF708GFU.bed.gz hg19 archived mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity ENCFF708GMO bed narrowPeak optimal idr thresholded peaks ENCSR230ZWH ChIP-seq UBERON:0002107 liver tissue Homo sapiens RAD21-human DNA False 2016-10-12 ENCODE 1, 2 ENCFF001TDO, ENCFF624XKD, ENCFF950LOX, ENCFF974XKH 1336347 ENCODE Processing Pipeline 7e9fff1df0984cd791bec85be62f671a https://www.encodeproject.org/files/ENCFF708GMO/@@download/ENCFF708GMO.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample ENCFF002CIE bed narrowPeak optimal idr thresholded peaks ENCSR000BND ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZEB1-human DNA see document see document False 2011-07-18 ENCODE 96309 ENCODE Consortium Analysis Working Group 8f01b8a623b959caa7f7e25876808635 https://www.encodeproject.org/files/ENCFF002CIE/@@download/ENCFF002CIE.bed.gz hg19 archived low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity missing derived_from, biological replicates with identical biosample, NTR biosample insufficient read depth, poor library complexity, severe bottlenecking extremely low read depth ENCFF997NGJ bed narrowPeak optimal idr thresholded peaks ENCSR000BND ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZEB1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF066EAT, ENCFF723OVS, ENCFF854TVA 126477 ENCODE Processing Pipeline 30a9b5ffb47654a81a0933837011f2b4 https://www.encodeproject.org/files/ENCFF997NGJ/@@download/ENCFF997NGJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, NTR biosample insufficient read depth, poor library complexity, severe bottlenecking extremely low read depth ENCFF732OWQ bed narrowPeak optimal idr thresholded peaks ENCSR543KOA ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB12-human DNA formaldehyde False 2017-11-28 ENCODE 1, 2 ENCFF001TDO, ENCFF141TPZ, ENCFF789DNP, ENCFF799KEV 201062 ENCODE Processing Pipeline 561f31317a694c35a659240423129976 https://www.encodeproject.org/files/ENCFF732OWQ/@@download/ENCFF732OWQ.bed.gz hg19 released missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF814REB bed narrowPeak optimal idr thresholded peaks ENCSR009TKN ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens RCOR1-human DNA False 2017-06-15 ENCODE 1, 2 ENCFF001TDO, ENCFF031DVG, ENCFF310CYQ, ENCFF479KRR 527913 ENCODE Processing Pipeline 02e8d555302bf4688d6bf86a850b6e8d https://www.encodeproject.org/files/ENCFF814REB/@@download/ENCFF814REB.bed.gz hg19 released low read length, antibody characterized with exemption ENCFF496DFA bed narrowPeak optimal idr thresholded peaks ENCSR754SOI ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF529-human DNA formaldehyde False 2017-11-28 ENCODE 1, 2 ENCFF001TDO, ENCFF144NJP, ENCFF573ODA, ENCFF722KNP 86340 ENCODE Processing Pipeline 0eab6ab7bd9f44ff39eb6e40a09a0373 https://www.encodeproject.org/files/ENCFF496DFA/@@download/ENCFF496DFA.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization experiment not submitted to GEO missing control alignments ENCFF611XTK bed narrowPeak optimal idr thresholded peaks ENCSR482BBZ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-GLIS1-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF018ZAD, ENCFF206GKW, ENCFF492QYQ 1121710 ENCODE Processing Pipeline 3f0adab62e7bb4a09b668cfb4f0e5a17 https://www.encodeproject.org/files/ENCFF611XTK/@@download/ENCFF611XTK.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF530ZTE bed narrowPeak optimal idr thresholded peaks ENCSR541WQI ChIP-seq EFO:0001086 A549 cell line Homo sapiens MAFK-human DNA False 2014-07-07 ENCODE 2, 3 ENCFF001TDO, ENCFF171KTF, ENCFF433MKF, ENCFF973PJK 1217890 ENCODE Processing Pipeline 2cb07e62a7925de227e413eedd005c61 https://www.encodeproject.org/files/ENCFF530ZTE/@@download/ENCFF530ZTE.bed.gz hg19 released experiment not submitted to GEO partially characterized antibody ENCFF168HHB bed narrowPeak optimal idr thresholded peaks ENCSR882ZTS ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZBTB11-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF125NRW, ENCFF469FSE, ENCFF541CCM 431630 ENCODE Processing Pipeline fabd7ac2458cd379262c7fb71586ee75 https://www.encodeproject.org/files/ENCFF168HHB/@@download/ENCFF168HHB.bed.gz hg19 released low read depth, missing genetic modification characterization missing control alignments ENCFF254EAY bed narrowPeak optimal idr thresholded peaks ENCSR551KAP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF138-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF354GLO, ENCFF787YKD, ENCFF884FCN 33268 ENCODE Processing Pipeline 0aea64856208c291e80952f0942f27eb https://www.encodeproject.org/files/ENCFF254EAY/@@download/ENCFF254EAY.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF535VSU bed narrowPeak optimal idr thresholded peaks ENCSR307CKC ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF680-human DNA formaldehyde False 2016-10-07 ENCODE 1, 2 ENCFF001TDO, ENCFF299KLM, ENCFF880CYE, ENCFF953KSE 202093 ENCODE Processing Pipeline e22ee408edbf431b05a86b1024439156 https://www.encodeproject.org/files/ENCFF535VSU/@@download/ENCFF535VSU.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF875JQT bed narrowPeak optimal idr thresholded peaks ENCSR224QDY ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF121-human DNA formaldehyde False 2016-10-25 ENCODE 1, 2 ENCFF001TDO, ENCFF120WDD, ENCFF281WOI, ENCFF494VDO 697059 ENCODE Processing Pipeline 14f94ab146635cd38c20b4c4673c1514 https://www.encodeproject.org/files/ENCFF875JQT/@@download/ENCFF875JQT.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF924XFS bed narrowPeak optimal idr thresholded peaks ENCSR634OAQ ChIP-seq EFO:0001221 NCI-H929 cell line Homo sapiens CTCF-human DNA False 2017-11-29 ENCODE 1, 2 ENCFF001TDO, ENCFF086DEW, ENCFF750EJJ, ENCFF848FMM 1016167 ENCODE Processing Pipeline 18e6e79e3172d18987ed0ed4bcf0426a https://www.encodeproject.org/files/ENCFF924XFS/@@download/ENCFF924XFS.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption NTR biosample, experiment not submitted to GEO insufficient read depth, poor library complexity, severe bottlenecking ENCFF002CXZ bed narrowPeak optimal idr thresholded peaks ENCSR000DOH ChIP-seq EFO:0002067 K562 cell line Homo sapiens SIRT6-human DNA see document see document False 2011-10-29 ENCODE 59038 ENCODE Consortium Analysis Working Group a4825e3644d78fd762ac3b567f9c698a https://www.encodeproject.org/files/ENCFF002CXZ/@@download/ENCFF002CXZ.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF403SBB bed narrowPeak optimal idr thresholded peaks ENCSR541AMF ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens CTCF-human DNA False 2017-11-13 ENCODE 1, 2 ENCFF001TDO, ENCFF040XUI, ENCFF399EZO, ENCFF519MIS 1050603 ENCODE Processing Pipeline 0e395f73816b021cc996d73f8b1fa49c https://www.encodeproject.org/files/ENCFF403SBB/@@download/ENCFF403SBB.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption NTR biosample, experiment not submitted to GEO ENCFF137IBM bed narrowPeak optimal idr thresholded peaks ENCSR814AJH ChIP-seq EFO:0002067 K562 cell line Homo sapiens SRSF9-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF169ZKI, ENCFF222MCF, ENCFF690XME 533 ENCODE Processing Pipeline 3da69747c2c7e765084cfddb90f40a51 https://www.encodeproject.org/files/ENCFF137IBM/@@download/ENCFF137IBM.bed.gz hg19 released low read length, low read depth experiment not submitted to GEO missing control alignments ENCFF910GER bed narrowPeak optimal idr thresholded peaks ENCSR823ADL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-RFXANK-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF304SPP, ENCFF875AMX, ENCFF997CJC 130841 ENCODE Processing Pipeline 9022ac929144e3b4ede8397e3c3495ba https://www.encodeproject.org/files/ENCFF910GER/@@download/ENCFF910GER.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF030VPE bed narrowPeak optimal idr thresholded peaks ENCSR569ARC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-NFYC-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF105ZTR, ENCFF702ZNH, ENCFF733RUB 272057 ENCODE Processing Pipeline 0227a611f6b295a0e5b16e7fc03ad8ac https://www.encodeproject.org/files/ENCFF030VPE/@@download/ENCFF030VPE.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF503SZB bed narrowPeak optimal idr thresholded peaks ENCSR422ZAO ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens IRF3-human DNA False 2016-11-10 ENCODE 2, 3 ENCFF001TDO, ENCFF253SCW, ENCFF360UWJ, ENCFF910MED 18928 ENCODE Processing Pipeline 2aea4dec6d18664385af8d5c9fd590ef https://www.encodeproject.org/files/ENCFF503SZB/@@download/ENCFF503SZB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance ENCFF236XBR bed narrowPeak optimal idr thresholded peaks ENCSR350ORK ChIP-seq UBERON:0002107 liver tissue Homo sapiens GABPA-human DNA False 2016-09-09 ENCODE 1, 2 ENCFF001TDO, ENCFF030PHB, ENCFF314VOK, ENCFF808RKL 106579 ENCODE Processing Pipeline 738397904efa4a1ce7b50f6bca1fb8ef https://www.encodeproject.org/files/ENCFF236XBR/@@download/ENCFF236XBR.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption biological replicates with identical biosample ENCFF002CUX bed narrowPeak optimal idr thresholded peaks ENCSR000EVQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TCF7L2-human DNA see document see document False 2011-10-29 ENCODE 66265 ENCODE Consortium Analysis Working Group 48217ad1de947d3aa04bab64adba7682 https://www.encodeproject.org/files/ENCFF002CUX/@@download/ENCFF002CUX.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from ENCFF002CKD bed narrowPeak optimal idr thresholded peaks ENCSR000BQI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CEBPB-human DNA see document see document False 2012-02-29 ENCODE 351541 ENCODE Consortium Analysis Working Group e5c7bb9a3ee8ae83426bb3a49cfd9370 https://www.encodeproject.org/files/ENCFF002CKD/@@download/ENCFF002CKD.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth, severe bottlenecking ENCFF471HCD bed narrowPeak optimal idr thresholded peaks ENCSR000BQI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CEBPB-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF073ACH, ENCFF721KHE, ENCFF774DWR 315269 ENCODE Processing Pipeline 9811f9d239aa6af3db6a129dcb21b892 https://www.encodeproject.org/files/ENCFF471HCD/@@download/ENCFF471HCD.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth, severe bottlenecking ENCFF002CVA bed narrowPeak optimal idr thresholded peaks ENCSR000EVR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZNF274-human DNA see document see document False 2011-10-29 ENCODE 6190 ENCODE Consortium Analysis Working Group 6d6e5c16bf06e488b8933b0b01da6aee https://www.encodeproject.org/files/ENCFF002CVA/@@download/ENCFF002CVA.bed.gz hg19 released inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CID bed narrowPeak optimal idr thresholded peaks ENCSR000BHC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZBTB33-human DNA see document see document False 2011-07-18 ENCODE 45250 ENCODE Consortium Analysis Working Group aba4f859bb9144077368e422a7f84b12 https://www.encodeproject.org/files/ENCFF002CID/@@download/ENCFF002CID.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF394CWJ bed narrowPeak optimal idr thresholded peaks ENCSR000BHC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZBTB33-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF141WKX, ENCFF372FLW, ENCFF891ZCM 44775 ENCODE Processing Pipeline 1e1ef221679ba28140cc4103b3ab4bb6 https://www.encodeproject.org/files/ENCFF394CWJ/@@download/ENCFF394CWJ.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF744DTQ bed narrowPeak optimal idr thresholded peaks ENCSR616MOB ChIP-seq EFO:0001086 A549 cell line Homo sapiens CBX8-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF208WDH, ENCFF676SDF, ENCFF818TBG 49458 ENCODE Processing Pipeline a496b8376f477648b4a6bac642491ab0 https://www.encodeproject.org/files/ENCFF744DTQ/@@download/ENCFF744DTQ.bed.gz hg19 released ENCFF071ZMT bed narrowPeak optimal idr thresholded peaks ENCSR321BJQ ChIP-seq EFO:0001086 A549 cell line Homo sapiens EHMT2-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF054VAP, ENCFF301YHJ, ENCFF534VFU 41060 ENCODE Processing Pipeline 4662c25eec38bb366dd86cc34ae8d2ee https://www.encodeproject.org/files/ENCFF071ZMT/@@download/ENCFF071ZMT.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption ENCFF397TFF bed narrowPeak optimal idr thresholded peaks ENCSR933MHJ ChIP-seq EFO:0001086 A549 cell line Homo sapiens KDM5A-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF129CAN, ENCFF153JBF, ENCFF881TQQ 95040 ENCODE Processing Pipeline 2ea687c85dcf6ffef5fc2c0d8fb16c7d https://www.encodeproject.org/files/ENCFF397TFF/@@download/ENCFF397TFF.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF939TZS bed narrowPeak optimal idr thresholded peaks ENCSR897MMC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens JUNB-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF236WSQ, ENCFF294GPL, ENCFF332JOV 594939 ENCODE Processing Pipeline 9d4f96a2a04e052aa45a02e3702c33d5 https://www.encodeproject.org/files/ENCFF939TZS/@@download/ENCFF939TZS.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption ENCFF311LEU bed narrowPeak optimal idr thresholded peaks ENCSR518WPL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NR2F6-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF289JSG, ENCFF524UVY, ENCFF649MCA 533877 ENCODE Processing Pipeline ecc965b347f5de0a0f97d0a66178b5ab https://www.encodeproject.org/files/ENCFF311LEU/@@download/ENCFF311LEU.bed.gz hg19 released antibody characterized with exemption ENCFF223YXP bed narrowPeak optimal idr thresholded peaks ENCSR997GPO ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens NFRKB-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF026UVT, ENCFF079EBS, ENCFF327WVX 45043 ENCODE Processing Pipeline 7759e7359a29237473e4bdd33e0ea03e https://www.encodeproject.org/files/ENCFF223YXP/@@download/ENCFF223YXP.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity ENCFF002DCR bed narrowPeak optimal idr thresholded peaks ENCSR000DTI ChIP-seq CL:0000746 cardiac muscle cell primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HKJ, ENCFF001HKP 1008976 ENCODE Consortium Analysis Working Group a940b25f9df0e1d4537b3d03d4b2859f https://www.encodeproject.org/files/ENCFF002DCR/@@download/ENCFF002DCR.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth ENCFF266GGD bed narrowPeak optimal idr thresholded peaks ENCSR000DTI ChIP-seq CL:0000746 cardiac muscle cell primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF504WUQ, ENCFF574BPV, ENCFF883SBZ 763849 ENCODE Processing Pipeline 0676fa28175caf0322d3a91f2a8ff9f1 https://www.encodeproject.org/files/ENCFF266GGD/@@download/ENCFF266GGD.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF106DGJ bed narrowPeak optimal idr thresholded peaks ENCSR562POI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-THAP11-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF435TGK, ENCFF916LOP, ENCFF942SPR 662044 ENCODE Processing Pipeline 97d6977994544427b738f60719368b09 https://www.encodeproject.org/files/ENCFF106DGJ/@@download/ENCFF106DGJ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CZE bed narrowPeak optimal idr thresholded peaks ENCSR000DOZ ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens ethanol 0.01 percent 36.0 hour STAT3-human DNA see document see document False 2011-10-29 ENCODE 280558 ENCODE Consortium Analysis Working Group 1ddd6ed315bed89eeefb5a854d2662f6 https://www.encodeproject.org/files/ENCFF002CZE/@@download/ENCFF002CZE.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, missing genetic modification characterization, low read depth biological replicates with identical biosample, missing derived_from insufficient read depth, severe bottlenecking ENCFF807JAC bed narrowPeak optimal idr thresholded peaks ENCSR000DOZ ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens ethanol 0.01 percent 36.0 hour STAT3-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF113OOA, ENCFF487XXM, ENCFF715ZPN 254705 ENCODE Processing Pipeline a129bf26832d975432ee1772843b584d https://www.encodeproject.org/files/ENCFF807JAC/@@download/ENCFF807JAC.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, missing genetic modification characterization, low read depth biological replicates with identical biosample insufficient read depth, severe bottlenecking ENCFF626AQW bed narrowPeak optimal idr thresholded peaks ENCSR798EGJ ChIP-seq EFO:0001086 A549 cell line Homo sapiens RNF2-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF353OKS, ENCFF702IHF, ENCFF997LLV 81595 ENCODE Processing Pipeline e66e64a421129739c72abfc146e5d48b https://www.encodeproject.org/files/ENCFF626AQW/@@download/ENCFF626AQW.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, antibody characterized with exemption ENCFF997RPK bed narrowPeak optimal idr thresholded peaks ENCSR551ZDZ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MTA2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF512TAK, ENCFF665QYO, ENCFF827YDE 21178 ENCODE Processing Pipeline 5327f9e036270e1e5ae60827f370090e https://www.encodeproject.org/files/ENCFF997RPK/@@download/ENCFF997RPK.bed.gz hg19 released borderline replicate concordance ENCFF076NCP bed narrowPeak optimal idr thresholded peaks ENCSR714YZG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ETV4-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF199LZX, ENCFF291ZSM, ENCFF705ZZH 369919 ENCODE Processing Pipeline 8261a6ff14619464c051031f34bd7e49 https://www.encodeproject.org/files/ENCFF076NCP/@@download/ENCFF076NCP.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF002CKO bed narrowPeak optimal idr thresholded peaks ENCSR000BNJ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNF4G-human DNA see document see document False 2011-07-18 ENCODE 453401 ENCODE Consortium Analysis Working Group 0161422718c3df687e5093500f560cca https://www.encodeproject.org/files/ENCFF002CKO/@@download/ENCFF002CKO.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from missing control alignments ENCFF140ARE bed narrowPeak optimal idr thresholded peaks ENCSR000BNJ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNF4G-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF540FQF, ENCFF600JKB, ENCFF608NEP 417895 ENCODE Processing Pipeline 361cfa119c4ac6576c821f2a7dfb483f https://www.encodeproject.org/files/ENCFF140ARE/@@download/ENCFF140ARE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample missing control alignments ENCFF002DBR bed narrowPeak optimal idr thresholded peaks ENCSR000DNC ChIP-seq CL:0000312 keratinocyte primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1288633 ENCODE Consortium Analysis Working Group b19f9819dee4cce3c29d258c816d897c https://www.encodeproject.org/files/ENCFF002DBR/@@download/ENCFF002DBR.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF226MQR bed narrowPeak optimal idr thresholded peaks ENCSR000DNC ChIP-seq CL:0000312 keratinocyte primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF680MAX, ENCFF705JDO, ENCFF974JVU 777450 ENCODE Processing Pipeline 88ccad5203a63876e6a75b360b38c092 https://www.encodeproject.org/files/ENCFF226MQR/@@download/ENCFF226MQR.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF242IWJ bed narrowPeak optimal idr thresholded peaks ENCSR189TRZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens TCF12-human DNA False 2016-07-08 ENCODE 1, 2 ENCFF001TDO, ENCFF436EEZ, ENCFF627NVL, ENCFF777QKF 294099 ENCODE Processing Pipeline a3a1e5f8f633db2836973205f624314e https://www.encodeproject.org/files/ENCFF242IWJ/@@download/ENCFF242IWJ.bed.gz hg19 released antibody characterized with exemption ENCFF622VSV bed narrowPeak optimal idr thresholded peaks ENCSR151NQL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens AGO2-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF101OYM, ENCFF385YDL, ENCFF762PXH 811866 ENCODE Processing Pipeline 626d88fc07d901e090d226bfed42f811 https://www.encodeproject.org/files/ENCFF622VSV/@@download/ENCFF622VSV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO partially characterized antibody ENCFF002CHI bed narrowPeak optimal idr thresholded peaks ENCSR000BHB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EP300-human DNA see document see document False 2011-07-18 ENCODE 115128 ENCODE Consortium Analysis Working Group 0258dfcc5a886fb896f9f4e633e299dd https://www.encodeproject.org/files/ENCFF002CHI/@@download/ENCFF002CHI.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient replicate concordance ENCFF302XID bed narrowPeak optimal idr thresholded peaks ENCSR000BHB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EP300-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF043OJL, ENCFF804LKJ, ENCFF901YUN 74253 ENCODE Processing Pipeline 86772eabea3fb88597077cba207fc9b3 https://www.encodeproject.org/files/ENCFF302XID/@@download/ENCFF302XID.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample insufficient read depth, insufficient replicate concordance ENCFF890IRR bed narrowPeak optimal idr thresholded peaks ENCSR541AOQ ChIP-seq EFO:0001086 A549 cell line Homo sapiens PHF8-human DNA False 2016-11-23 ENCODE 1, 2 ENCFF001TDO, ENCFF218NQT, ENCFF558UKL, ENCFF598TIP 299101 ENCODE Processing Pipeline 1e9c6f523c529cd301d3dc301ea7924e https://www.encodeproject.org/files/ENCFF890IRR/@@download/ENCFF890IRR.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, antibody characterized with exemption ENCFF723RSX bed narrowPeak optimal idr thresholded peaks ENCSR051OUX ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFATC3-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF596YYO, ENCFF607MDM, ENCFF631AZA 249584 ENCODE Processing Pipeline d4f82f8346e6cfaeeea5dffc52df893e https://www.encodeproject.org/files/ENCFF723RSX/@@download/ENCFF723RSX.bed.gz hg19 released mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody ENCFF434QZL bed narrowPeak optimal idr thresholded peaks ENCSR331GDC ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBTB11-human DNA False 2016-06-28 ENCODE 1, 2 ENCFF001TDO, ENCFF416FBH, ENCFF429ZJG, ENCFF929FJI 128593 ENCODE Processing Pipeline 4f90e8cc9263cacf63e92bbbf564133f https://www.encodeproject.org/files/ENCFF434QZL/@@download/ENCFF434QZL.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption ENCFF070WUF bed narrowPeak optimal idr thresholded peaks ENCSR277BXW ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZBTB7B-human DNA False 2017-05-17 ENCODE 1, 2 ENCFF001TDO, ENCFF193XWN, ENCFF608QLM, ENCFF833ZCJ 181313 ENCODE Processing Pipeline 47ce73959ffcfc87815a378c3caf15a5 https://www.encodeproject.org/files/ENCFF070WUF/@@download/ENCFF070WUF.bed.gz hg19 released ENCFF065UFF bed narrowPeak optimal idr thresholded peaks ENCSR391JII ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens RCOR1-human DNA False 2016-06-14 ENCODE 3, 4 ENCFF001TDO, ENCFF804UPE, ENCFF833DXW, ENCFF836PMF 168014 ENCODE Processing Pipeline d14e3ffe1f613e32c10a0348cc8affca https://www.encodeproject.org/files/ENCFF065UFF/@@download/ENCFF065UFF.bed.gz hg19 released low read depth ENCFF002CXF bed narrowPeak optimal idr thresholded peaks ENCSR000EGZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens MXI1-human DNA see document see document False 2011-10-29 ENCODE 167844 ENCODE Consortium Analysis Working Group ad39164396d52a0f2553d28532d80f58 https://www.encodeproject.org/files/ENCFF002CXF/@@download/ENCFF002CXF.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF970LCB bed narrowPeak optimal idr thresholded peaks ENCSR000EGZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens MXI1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF400DMX, ENCFF408TRC, ENCFF492QMD 161913 ENCODE Processing Pipeline 5fde622a545fc7d9f4edabddd920274c https://www.encodeproject.org/files/ENCFF970LCB/@@download/ENCFF970LCB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CPW bed narrowPeak optimal idr thresholded peaks ENCSR000DZL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF143-human DNA see document see document False 2011-10-29 ENCODE 478466 ENCODE Consortium Analysis Working Group 01f2af5399bd0b982e3d3b88e66168bc https://www.encodeproject.org/files/ENCFF002CPW/@@download/ENCFF002CPW.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from control insufficient read depth, insufficient replicate concordance ENCFF141SAU bed narrowPeak optimal idr thresholded peaks ENCSR000DZL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF143-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF046WGV, ENCFF420LVZ, ENCFF704WHY 660604 ENCODE Processing Pipeline 8b9eb2c39e56a1197433faf476328b10 https://www.encodeproject.org/files/ENCFF141SAU/@@download/ENCFF141SAU.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample control insufficient read depth, insufficient replicate concordance ENCFF002CPA bed narrowPeak optimal idr thresholded peaks ENCSR000EAG ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens tumor necrosis factor 25 ng/mL 6 hour RELA-human DNA see document see document False 2012-05-14 ENCODE 414083 ENCODE Consortium Analysis Working Group 536e19e1527ff5f05e1cbf59582972ff https://www.encodeproject.org/files/ENCFF002CPA/@@download/ENCFF002CPA.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CMB bed narrowPeak optimal idr thresholded peaks ENCSR000BMG ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC2-human DNA see document see document False 2011-07-18 ENCODE 128678 ENCODE Consortium Analysis Working Group fe645c91ac33d4e3222a007677d53650 https://www.encodeproject.org/files/ENCFF002CMB/@@download/ENCFF002CMB.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample poor library complexity, severe bottlenecking extremely low read depth ENCFF667HLC bed narrowPeak optimal idr thresholded peaks ENCSR000BMG ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC2-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF246ENE, ENCFF336UZW, ENCFF735NAF 160465 ENCODE Processing Pipeline ee3222ea4ba9e0e28d04252bf3caeb15 https://www.encodeproject.org/files/ENCFF667HLC/@@download/ENCFF667HLC.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking biological replicates with identical biosample poor library complexity, severe bottlenecking extremely low read depth ENCFF002CGA bed narrowPeak optimal idr thresholded peaks ENCSR000BPF ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour TAF1-human DNA see document see document False 2012-02-29 ENCODE 214826 ENCODE Consortium Analysis Working Group e55575f1e1335ada6952246bd80535a1 https://www.encodeproject.org/files/ENCFF002CGA/@@download/ENCFF002CGA.bed.gz hg19 archived low read length, mild to moderate bottlenecking, borderline replicate concordance missing derived_from, biological replicates with identical biosample ENCFF747LKL bed narrowPeak optimal idr thresholded peaks ENCSR000BPF ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour TAF1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF371XXQ, ENCFF515ZED, ENCFF606JSI 306040 ENCODE Processing Pipeline be3c3a4fe3dfd0512da67a296562eff7 https://www.encodeproject.org/files/ENCFF747LKL/@@download/ENCFF747LKL.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance biological replicates with identical biosample ENCFF002CGG bed narrowPeak optimal idr thresholded peaks ENCSR000BPZ ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour ZBTB33-human DNA see document see document False 2012-02-29 ENCODE 182974 ENCODE Consortium Analysis Working Group 35e7864c26166b091a0d73cec1ae8595 https://www.encodeproject.org/files/ENCFF002CGG/@@download/ENCFF002CGG.bed.gz hg19 archived low read length biological replicates with identical biosample, missing derived_from ENCFF639NGJ bed narrowPeak optimal idr thresholded peaks ENCSR000BPZ ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour ZBTB33-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF213KTM, ENCFF327NKC, ENCFF903RWE 201332 ENCODE Processing Pipeline fa24c935ecf2f82e6f2a303a812a5730 https://www.encodeproject.org/files/ENCFF639NGJ/@@download/ENCFF639NGJ.bed.gz hg19 released low read length biological replicates with identical biosample ENCFF002DDG bed narrowPeak optimal idr thresholded peaks ENCSR000DVI ChIP-seq CL:0002586 retinal pigment epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HRO, ENCFF001HRS 1184350 ENCODE Consortium Analysis Working Group 129a0f5bb7fcab4c455672663f493192 https://www.encodeproject.org/files/ENCFF002DDG/@@download/ENCFF002DDG.bed.gz hg19 archived control low read depth, low read length, low read depth, inconsistent platforms ENCFF139DOR bed narrowPeak optimal idr thresholded peaks ENCSR000DVI ChIP-seq CL:0002586 retinal pigment epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF412BGE, ENCFF647XYZ, ENCFF695UND 908206 ENCODE Processing Pipeline 0a252ead988d04608f92e283a28c1b6c https://www.encodeproject.org/files/ENCFF139DOR/@@download/ENCFF139DOR.bed.gz hg19 released control low read depth, low read length, low read depth, inconsistent platforms ENCFF002CVM bed narrowPeak optimal idr thresholded peaks ENCSR000DNZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ATF1-human DNA see document see document False 2012-05-14 ENCODE 373491 ENCODE Consortium Analysis Working Group 225df5bb216e466ac39f799e1eaa6e61 https://www.encodeproject.org/files/ENCFF002CVM/@@download/ENCFF002CVM.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CQV bed narrowPeak optimal idr thresholded peaks ENCSR000EBY ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens MYC-human DNA see document see document False 2012-05-14 ENCODE 119712 ENCODE Consortium Analysis Working Group 6571f69723eb01caa7da53909fe4b27b https://www.encodeproject.org/files/ENCFF002CQV/@@download/ENCFF002CQV.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF569IGP bed narrowPeak optimal idr thresholded peaks ENCSR000EBY ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens MYC-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF164IAN, ENCFF241JSX, ENCFF808TOG 118663 ENCODE Processing Pipeline c21c11458242075faf796af2b64d9804 https://www.encodeproject.org/files/ENCFF569IGP/@@download/ENCFF569IGP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DCZ bed narrowPeak optimal idr thresholded peaks ENCSR000DUM ChIP-seq EFO:0005710 HFF-Myc cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HOF, ENCFF001HOK 907794 ENCODE Consortium Analysis Working Group b733a057cca5f0d58d39b49e4d4999ef https://www.encodeproject.org/files/ENCFF002DCZ/@@download/ENCFF002DCZ.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking missing control alignments ENCFF282QFS bed narrowPeak optimal idr thresholded peaks ENCSR000DUM ChIP-seq EFO:0005710 HFF-Myc cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF211MMB, ENCFF683OHM, ENCFF777FSS 658629 ENCODE Processing Pipeline 5cb966acd351fac7cc8466d60a973372 https://www.encodeproject.org/files/ENCFF282QFS/@@download/ENCFF282QFS.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking missing control alignments ENCFF002CNK bed narrowPeak optimal idr thresholded peaks ENCSR000BOZ ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens REST-human DNA see document see document False 2012-02-29 ENCODE 250627 ENCODE Consortium Analysis Working Group fd4b8b1a0e1a4b5dad3863cfb09546b7 https://www.encodeproject.org/files/ENCFF002CNK/@@download/ENCFF002CNK.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF781PAL bed narrowPeak optimal idr thresholded peaks ENCSR000BOZ ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens REST-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF046BKR, ENCFF376SMA, ENCFF546CXR 296216 ENCODE Processing Pipeline 49f87a41db2a31840fd1bfc3d95f27f6 https://www.encodeproject.org/files/ENCFF781PAL/@@download/ENCFF781PAL.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF002CKY bed narrowPeak optimal idr thresholded peaks ENCSR000BLS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RAD21-human DNA see document see document False 2011-07-18 ENCODE 1262235 ENCODE Consortium Analysis Working Group 78cc5c13e7d3c26e1d83abdcaea59804 https://www.encodeproject.org/files/ENCFF002CKY/@@download/ENCFF002CKY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF072UEX bed narrowPeak optimal idr thresholded peaks ENCSR000BLS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RAD21-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF020QWB, ENCFF374LID, ENCFF415ZQD 944041 ENCODE Processing Pipeline 1ff2fbb867b1a9a4b26928036292ae06 https://www.encodeproject.org/files/ENCFF072UEX/@@download/ENCFF072UEX.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF002CMG bed narrowPeak optimal idr thresholded peaks ENCSR000BQY ChIP-seq EFO:0002067 K562 cell line Homo sapiens PML-human DNA see document see document False 2012-02-29 ENCODE 315726 ENCODE Consortium Analysis Working Group 1d1567ffccbd267df03c88c0b848fb7a https://www.encodeproject.org/files/ENCFF002CMG/@@download/ENCFF002CMG.bed.gz hg19 archived low read length, low read depth, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF881QBT bed narrowPeak optimal idr thresholded peaks ENCSR000BQY ChIP-seq EFO:0002067 K562 cell line Homo sapiens PML-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF357MIU, ENCFF475WRI, ENCFF647VTS 363996 ENCODE Processing Pipeline 8a230e2d708194877fa300a482c1d92a https://www.encodeproject.org/files/ENCFF881QBT/@@download/ENCFF881QBT.bed.gz hg19 released low read length, low read depth, inconsistent platforms biological replicates with identical biosample ENCFF495MHZ bed narrowPeak optimal idr thresholded peaks ENCSR000FCC ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFE2-human DNA see document see document False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF552ZAY, ENCFF803FZY, ENCFF813HVG 486318 ENCODE Processing Pipeline 7a79922b588af54d6245ba1711aac16f https://www.encodeproject.org/files/ENCFF495MHZ/@@download/ENCFF495MHZ.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF654BMD bed narrowPeak optimal idr thresholded peaks ENCSR257XVY ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZNF83-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF254TMJ, ENCFF392CTG, ENCFF609KYL 174216 ENCODE Processing Pipeline 23427149d84edb0eff7ef3d6750b8089 https://www.encodeproject.org/files/ENCFF654BMD/@@download/ENCFF654BMD.bed.gz hg19 released borderline replicate concordance, low read depth, missing genetic modification characterization ENCFF002CJT bed narrowPeak optimal idr thresholded peaks ENCSR000BKD ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 360295 ENCODE Consortium Analysis Working Group 4b11a8fb4cb32982db9903bb88c63fd5 https://www.encodeproject.org/files/ENCFF002CJT/@@download/ENCFF002CJT.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample ENCFF686VJY bed narrowPeak optimal idr thresholded peaks ENCSR000BKD ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF052MDZ, ENCFF535RGW, ENCFF654AYS 425021 ENCODE Processing Pipeline 528631c3a11fa1a1f12c9340d582e94c https://www.encodeproject.org/files/ENCFF686VJY/@@download/ENCFF686VJY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002CRA bed narrowPeak optimal idr thresholded peaks ENCSR000EUP ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens MAX-human DNA see document see document False 2011-10-29 ENCODE 233658 ENCODE Consortium Analysis Working Group 4202c09bf17472b546e9289570a6f946 https://www.encodeproject.org/files/ENCFF002CRA/@@download/ENCFF002CRA.bed.gz hg19 archived borderline replicate concordance missing derived_from, biological replicates with identical biosample insufficient read length extremely low read depth ENCFF668VNS bed narrowPeak optimal idr thresholded peaks ENCSR000EUP ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens MAX-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF056RFC, ENCFF566JIH, ENCFF667ZFL 94566 ENCODE Processing Pipeline d5e88944c656337613f322a78d3b9172 https://www.encodeproject.org/files/ENCFF668VNS/@@download/ENCFF668VNS.bed.gz hg19 released borderline replicate concordance biological replicates with identical biosample insufficient read length extremely low read depth ENCFF699ZII bed narrowPeak optimal idr thresholded peaks ENCSR429QPP ChIP-seq EFO:0002067 K562 cell line Homo sapiens FOXM1-human DNA False 2017-01-27 ENCODE 1, 2 ENCFF001TDO, ENCFF804EPQ, ENCFF805KEB, ENCFF847FHY 287070 ENCODE Processing Pipeline 4775f57db3e59a973c0c857c17c0de9b https://www.encodeproject.org/files/ENCFF699ZII/@@download/ENCFF699ZII.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF096XMD bed narrowPeak optimal idr thresholded peaks ENCSR524BUE ChIP-seq EFO:0002067 K562 cell line Homo sapiens RAD51-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF103VVN, ENCFF124ZGQ, ENCFF457XPX 282692 ENCODE Processing Pipeline 59332e8ca90fc4507468b673efd55907 https://www.encodeproject.org/files/ENCFF096XMD/@@download/ENCFF096XMD.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth ENCFF058JCF bed narrowPeak optimal idr thresholded peaks ENCSR295BIP ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF777-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF112OBU, ENCFF498QTD, ENCFF586QMR 142237 ENCODE Processing Pipeline 7591e7c68cd75d13e1d322c6f604138c https://www.encodeproject.org/files/ENCFF058JCF/@@download/ENCFF058JCF.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization missing control alignments ENCFF708LCH bed narrowPeak optimal idr thresholded peaks ENCSR996DUT ChIP-seq EFO:0001086 A549 cell line Homo sapiens JUN-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF155WKH, ENCFF716DUT, ENCFF967FLQ 31888 ENCODE Processing Pipeline 707010bb7e38adb0fb4b076267d2cc41 https://www.encodeproject.org/files/ENCFF708LCH/@@download/ENCFF708LCH.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption ENCFF002CXM bed narrowPeak optimal idr thresholded peaks ENCSR000FAY ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute POLR2A-human DNA see document see document False 2011-10-29 ENCODE 277358 ENCODE Consortium Analysis Working Group cb46bdb294329aff6896b6c0f804bbc7 https://www.encodeproject.org/files/ENCFF002CXM/@@download/ENCFF002CXM.bed.gz hg19 archived control low read depth, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF662YQK bed narrowPeak optimal idr thresholded peaks ENCSR000FAY ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute POLR2A-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF368DTT, ENCFF502ZBE, ENCFF573ZMO 329502 ENCODE Processing Pipeline f8f090e562e1e4b21badd0f06731c1e1 https://www.encodeproject.org/files/ENCFF662YQK/@@download/ENCFF662YQK.bed.gz hg19 released control low read depth, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF386WKY bed narrowPeak optimal idr thresholded peaks ENCSR370NFS ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF280A-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF082MXA, ENCFF310DOZ, ENCFF434UXV 99822 ENCODE Processing Pipeline 0bd29eef25235deb45fd77ec5aaa0ce4 https://www.encodeproject.org/files/ENCFF386WKY/@@download/ENCFF386WKY.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF002CGS bed narrowPeak optimal idr thresholded peaks ENCSR000BNQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BCL3-human DNA see document see document False 2011-07-18 ENCODE 300102 ENCODE Consortium Analysis Working Group 1fa40f4212396dbecc511b3a3a361c40 https://www.encodeproject.org/files/ENCFF002CGS/@@download/ENCFF002CGS.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth, poor library complexity, severe bottlenecking ENCFF625SHY bed narrowPeak optimal idr thresholded peaks ENCSR000BNQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BCL3-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF017OSU, ENCFF255RCD, ENCFF306BBY 357177 ENCODE Processing Pipeline 27296c76fc5b23b80e229644883fa76d https://www.encodeproject.org/files/ENCFF625SHY/@@download/ENCFF625SHY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample insufficient read depth, poor library complexity, severe bottlenecking ENCFF083YCQ bed narrowPeak optimal idr thresholded peaks ENCSR731LHZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens E4F1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF249GYD, ENCFF713DFK, ENCFF952KDF 454049 ENCODE Processing Pipeline 6f611b81e2e1ca4ecaa174c4c3617412 https://www.encodeproject.org/files/ENCFF083YCQ/@@download/ENCFF083YCQ.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO, out of date analysis partially characterized antibody ENCFF750JOB bed narrowPeak optimal idr thresholded peaks ENCSR000BLB ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens ethanol 0.02 percent 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF010JFS, ENCFF093PHA, ENCFF471HFA 59329 ENCODE Processing Pipeline be4b0fd390fa5e9646dcb71a49dd1488 https://www.encodeproject.org/files/ENCFF750JOB/@@download/ENCFF750JOB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF575FVP bed narrowPeak optimal idr thresholded peaks ENCSR038RXU ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens eGFP-GABPA-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF414XXU, ENCFF943DQA, ENCFF976XOX 61728 ENCODE Processing Pipeline 1794332ea2b9cca10525aae42a792c68 https://www.encodeproject.org/files/ENCFF575FVP/@@download/ENCFF575FVP.bed.gz hg19 released control low read depth, low read depth, missing genetic modification characterization ENCFF057EIS bed narrowPeak optimal idr thresholded peaks ENCSR475SOC ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens eGFP-ELF1-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF270GEP, ENCFF274KQN, ENCFF370CWB 64787 ENCODE Processing Pipeline e08e1fcedfca858311582a55a685cbc9 https://www.encodeproject.org/files/ENCFF057EIS/@@download/ENCFF057EIS.bed.gz hg19 released missing genetic modification characterization ENCFF297JZQ bed narrowPeak optimal idr thresholded peaks ENCSR658WFQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens NCOA1-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF017TYA, ENCFF900BSR, ENCFF904VPX 366322 ENCODE Processing Pipeline d78ea51f6aa867de601e3cf900656fb7 https://www.encodeproject.org/files/ENCFF297JZQ/@@download/ENCFF297JZQ.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF002CPR bed narrowPeak optimal idr thresholded peaks ENCSR000DZZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TBP-human DNA see document see document False 2011-10-29 ENCODE 380865 ENCODE Consortium Analysis Working Group 76fd4d8cc7d5952f67c615f60a14afda https://www.encodeproject.org/files/ENCFF002CPR/@@download/ENCFF002CPR.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF490VYC bed narrowPeak optimal idr thresholded peaks ENCSR000DZZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TBP-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF052EPC, ENCFF054TZW, ENCFF113YPN 360409 ENCODE Processing Pipeline 83b95b0b1fe7e2d9274f754390afa39e https://www.encodeproject.org/files/ENCFF490VYC/@@download/ENCFF490VYC.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF156HJU bed narrowPeak optimal idr thresholded peaks ENCSR897JCM ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF491-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF420LEC, ENCFF596TET, ENCFF684UEV 16339 ENCODE Processing Pipeline 96c0953c0267ec21bdf7cee64c0362ba https://www.encodeproject.org/files/ENCFF156HJU/@@download/ENCFF156HJU.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF002CHO bed narrowPeak optimal idr thresholded peaks ENCSR000BGD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 590379 ENCODE Consortium Analysis Working Group 88dffe9237451b6aecab755ae94462fd https://www.encodeproject.org/files/ENCFF002CHO/@@download/ENCFF002CHO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample ENCFF120VUT bed narrowPeak optimal idr thresholded peaks ENCSR000BGD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF591LRS, ENCFF630QJJ, ENCFF879SHG 820085 ENCODE Processing Pipeline bca31e848a128f562b9082c678c3ad04 https://www.encodeproject.org/files/ENCFF120VUT/@@download/ENCFF120VUT.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002CJY bed narrowPeak optimal idr thresholded peaks ENCSR000BMN ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 207254 ENCODE Consortium Analysis Working Group 14614b562eba5f555233926b8a0d4db7 https://www.encodeproject.org/files/ENCFF002CJY/@@download/ENCFF002CJY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF932CSV bed narrowPeak optimal idr thresholded peaks ENCSR000BMN ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF129OMT, ENCFF623RZZ, ENCFF988BKX 196122 ENCODE Processing Pipeline 6f3de2bcbff211cb74b9c8d2fa8fcbb4 https://www.encodeproject.org/files/ENCFF932CSV/@@download/ENCFF932CSV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth ENCFF002CUR bed narrowPeak optimal idr thresholded peaks ENCSR000EDX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2011-10-29 ENCODE 108398 ENCODE Consortium Analysis Working Group 00daed6635310be8c015344dbdd4477c https://www.encodeproject.org/files/ENCFF002CUR/@@download/ENCFF002CUR.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF648ZES bed narrowPeak optimal idr thresholded peaks ENCSR000EDX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF237QGI, ENCFF273UTG, ENCFF316CBZ 129144 ENCODE Processing Pipeline de0a71d3bfb6018d2bfed3d7aebcac85 https://www.encodeproject.org/files/ENCFF648ZES/@@download/ENCFF648ZES.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DCO bed narrowPeak optimal idr thresholded peaks ENCSR000DSU ChIP-seq CL:0002606 astrocyte of the spinal cord primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HIY, ENCFF001HIZ 986802 ENCODE Consortium Analysis Working Group 799bc6c3af731285c238b6574d7adfe2 https://www.encodeproject.org/files/ENCFF002DCO/@@download/ENCFF002DCO.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms ENCFF312HCK bed narrowPeak optimal idr thresholded peaks ENCSR000DSU ChIP-seq CL:0002606 astrocyte of the spinal cord primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF729AWY, ENCFF892VYV, ENCFF994JFX 765148 ENCODE Processing Pipeline 9dd0d6cf8e5d23c421e1eeffab57d9d4 https://www.encodeproject.org/files/ENCFF312HCK/@@download/ENCFF312HCK.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms ENCFF002CYA bed narrowPeak optimal idr thresholded peaks ENCSR000EGW ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMC3-human DNA see document see document False 2011-10-29 ENCODE 539320 ENCODE Consortium Analysis Working Group 95bc0f5d20a06647d0aaa79420ee0dc4 https://www.encodeproject.org/files/ENCFF002CYA/@@download/ENCFF002CYA.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF041YQC bed narrowPeak optimal idr thresholded peaks ENCSR000EGW ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMC3-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF041YJV, ENCFF714FTS, ENCFF892UIH 454792 ENCODE Processing Pipeline 2933d00ffe16c0f6bdc6e17cf2aa672e https://www.encodeproject.org/files/ENCFF041YQC/@@download/ENCFF041YQC.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample insufficient read depth ENCFF462FRU bed narrowPeak optimal idr thresholded peaks ENCSR924GXX ChIP-seq EFO:0002067 K562 cell line Homo sapiens PHB2-human DNA False 2017-01-27 ENCODE 1, 2 ENCFF001TDO, ENCFF231LOJ, ENCFF370RBU, ENCFF508MDN 140167 ENCODE Processing Pipeline 1426f48c300e84e812d6c2bc81cb4162 https://www.encodeproject.org/files/ENCFF462FRU/@@download/ENCFF462FRU.bed.gz hg19 released low read depth ENCFF883TOD bed narrowPeak optimal idr thresholded peaks ENCSR587OQL ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMARCA4-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF513IHI, ENCFF541RTC, ENCFF891UIQ 747434 ENCODE Processing Pipeline cec784262d95b72f7a8d5f021ea99398 https://www.encodeproject.org/files/ENCFF883TOD/@@download/ENCFF883TOD.bed.gz hg19 released ENCFF002DAG bed narrowPeak optimal idr thresholded peaks ENCSR000DKN ChIP-seq EFO:0002782 H54 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1314888 ENCODE Consortium Analysis Working Group f34ed5e00d411207c10dfb09de833671 https://www.encodeproject.org/files/ENCFF002DAG/@@download/ENCFF002DAG.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF909JAZ bed narrowPeak optimal idr thresholded peaks ENCSR000DKN ChIP-seq EFO:0002782 H54 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF438LOQ, ENCFF618WVP, ENCFF835YPT 843442 ENCODE Processing Pipeline 8fa9219e1759affd4c0fc9fe6cdece07 https://www.encodeproject.org/files/ENCFF909JAZ/@@download/ENCFF909JAZ.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample ENCFF002CHW bed narrowPeak optimal idr thresholded peaks ENCSR000BGE ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SRF-human DNA see document see document False 2011-07-18 ENCODE 184095 ENCODE Consortium Analysis Working Group 51328a96dd2d0fa59860316ae77b9b4b https://www.encodeproject.org/files/ENCFF002CHW/@@download/ENCFF002CHW.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF199WGD bed narrowPeak optimal idr thresholded peaks ENCSR000BGE ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SRF-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF339GTZ, ENCFF613VCR, ENCFF972PDN 55949 ENCODE Processing Pipeline edc30706d0e012b4c150f744cbd30f3f https://www.encodeproject.org/files/ENCFF199WGD/@@download/ENCFF199WGD.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF622RBW bed narrowPeak optimal idr thresholded peaks ENCSR157TCS ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMARCE1-human DNA False 2016-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF118OEM, ENCFF216OFC, ENCFF704QCS 630202 ENCODE Processing Pipeline 5f057957225cf1e6e0f6ab38a3f8c7fd https://www.encodeproject.org/files/ENCFF622RBW/@@download/ENCFF622RBW.bed.gz hg19 released mild to moderate bottlenecking ENCFF002CTU bed narrowPeak optimal idr thresholded peaks ENCSR000EDY ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens BRCA1-human DNA see document see document False 2011-10-29 ENCODE 41157 ENCODE Consortium Analysis Working Group 4e3339d5fd7fc75a651eaf7949e2f4af https://www.encodeproject.org/files/ENCFF002CTU/@@download/ENCFF002CTU.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF775PPJ bed narrowPeak optimal idr thresholded peaks ENCSR000EDY ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens BRCA1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF698OHI, ENCFF884QMQ, ENCFF890UER 39567 ENCODE Processing Pipeline 275c0cb5c6eb3e6d2abcb295077fbb51 https://www.encodeproject.org/files/ENCFF775PPJ/@@download/ENCFF775PPJ.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CKI bed narrowPeak optimal idr thresholded peaks ENCSR000BMO ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXA1-human DNA see document see document False 2011-07-18 ENCODE 1006721 ENCODE Consortium Analysis Working Group 435af70b9e131037c1925fb19659d220 https://www.encodeproject.org/files/ENCFF002CKI/@@download/ENCFF002CKI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from insufficient read depth missing control alignments ENCFF978IWS bed narrowPeak optimal idr thresholded peaks ENCSR000BMO ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXA1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF251GTF, ENCFF596END, ENCFF997MQT 846246 ENCODE Processing Pipeline 7762c6c6fa31a9c99ee27eedaac3b89f https://www.encodeproject.org/files/ENCFF978IWS/@@download/ENCFF978IWS.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth missing control alignments ENCFF002CPS bed narrowPeak optimal idr thresholded peaks ENCSR000EUL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NR2C2-human DNA see document see document False 2011-10-29 ENCODE 34405 ENCODE Consortium Analysis Working Group be45adf93388769e6fecf0357e511b77 https://www.encodeproject.org/files/ENCFF002CPS/@@download/ENCFF002CPS.bed.gz hg19 archived borderline replicate concordance, low read depth missing derived_from control insufficient read depth, insufficient read length ENCFF721FTG bed narrowPeak optimal idr thresholded peaks ENCSR000EUL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NR2C2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF258YSG, ENCFF423FMQ, ENCFF973NBX 20872 ENCODE Processing Pipeline abe930e6ea87a09befc3de1e721f6948 https://www.encodeproject.org/files/ENCFF721FTG/@@download/ENCFF721FTG.bed.gz hg19 released borderline replicate concordance, low read depth control insufficient read depth, insufficient read length ENCFF002DDL bed narrowPeak optimal idr thresholded peaks ENCSR000DWN ChIP-seq EFO:0002798 NB4 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1 ENCFF001HUI 726401 ENCODE Consortium Analysis Working Group 8424eaf10728844d829f289c279d647d https://www.encodeproject.org/files/ENCFF002DDL/@@download/ENCFF002DDL.bed.gz hg19 archived low read length, low read depth ENCFF002CHC bed narrowPeak optimal idr thresholded peaks ENCSR000BKB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MEF2A-human DNA see document see document False 2011-07-18 ENCODE 341744 ENCODE Consortium Analysis Working Group 54631587162d50440ad8b95c7c7e85c5 https://www.encodeproject.org/files/ENCFF002CHC/@@download/ENCFF002CHC.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF328QLX bed narrowPeak optimal idr thresholded peaks ENCSR000BKB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MEF2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF099ZTD, ENCFF951TLZ, ENCFF980AUY 367975 ENCODE Processing Pipeline cff7dbd079130eb4d37ffab592deaa84 https://www.encodeproject.org/files/ENCFF328QLX/@@download/ENCFF328QLX.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CTM bed narrowPeak optimal idr thresholded peaks ENCSR000EVN ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens NR2C2-human DNA see document see document False 2011-10-29 ENCODE 54026 ENCODE Consortium Analysis Working Group 52ff4a1ff05aae193e3ef1b3b89c71a9 https://www.encodeproject.org/files/ENCFF002CTM/@@download/ENCFF002CTM.bed.gz hg19 released inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CQJ bed narrowPeak optimal idr thresholded peaks ENCSR000EBD ChIP-seq EFO:0005349 GM18951 cell line Homo sapiens tumor necrosis factor 25 ng/mL 6 hour RELA-human DNA see document see document False 2011-10-29 ENCODE 334901 ENCODE Consortium Analysis Working Group 4de97ae097a0b7753657d415a0886a00 https://www.encodeproject.org/files/ENCFF002CQJ/@@download/ENCFF002CQJ.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CLF bed narrowPeak optimal idr thresholded peaks ENCSR000BJG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TCF12-human DNA see document see document False 2011-07-18 ENCODE 52120 ENCODE Consortium Analysis Working Group cf726c8c2b2cdf3ccdfcb4232d5f3431 https://www.encodeproject.org/files/ENCFF002CLF/@@download/ENCFF002CLF.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient replicate concordance ENCFF940BIM bed narrowPeak optimal idr thresholded peaks ENCSR000BJG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TCF12-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF080AEE, ENCFF549YBI, ENCFF682QML 82467 ENCODE Processing Pipeline ef10ea189b4f938947aaadfa6b6f4e84 https://www.encodeproject.org/files/ENCFF940BIM/@@download/ENCFF940BIM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient replicate concordance ENCFF786WZD bed narrowPeak optimal idr thresholded peaks ENCSR387SYS ChIP-seq EFO:0002067 K562 cell line Homo sapiens DEAF1-human DNA False 2016-03-30 ENCODE 1, 2 ENCFF001TDO, ENCFF433RNR, ENCFF671XXI, ENCFF774DGH 64933 ENCODE Processing Pipeline 35a9ccfb765df1b979ffba0e21e27919 https://www.encodeproject.org/files/ENCFF786WZD/@@download/ENCFF786WZD.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF002CYF bed narrowPeak optimal idr thresholded peaks ENCSR000FAT ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute STAT2-human DNA see document see document False 2011-10-29 ENCODE 77558 ENCODE Consortium Analysis Working Group f93fb9e05c31ec08feb48472ef6fddc6 https://www.encodeproject.org/files/ENCFF002CYF/@@download/ENCFF002CYF.bed.gz hg19 archived control low read depth missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF714VIT bed narrowPeak optimal idr thresholded peaks ENCSR000FAT ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute STAT2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF054VTQ, ENCFF395EZO, ENCFF926XFR 66698 ENCODE Processing Pipeline 6941bc52652563547e46896535a4debe https://www.encodeproject.org/files/ENCFF714VIT/@@download/ENCFF714VIT.bed.gz hg19 released control low read depth biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF556YCY bed narrowPeak optimal idr thresholded peaks ENCSR546IHU ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF184-human DNA False 2017-07-28 ENCODE 1, 2 ENCFF001TDO, ENCFF121MTK, ENCFF580OVF, ENCFF722GTZ 197431 ENCODE Processing Pipeline 3f96e4acd4c424097caf1ee9eceedf8a https://www.encodeproject.org/files/ENCFF556YCY/@@download/ENCFF556YCY.bed.gz hg19 released ENCFF002DBK bed narrowPeak optimal idr thresholded peaks ENCSR000DMO ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1204700 ENCODE Consortium Analysis Working Group 0cbea058963fdb97803bd31b4d28039b https://www.encodeproject.org/files/ENCFF002DBK/@@download/ENCFF002DBK.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample poor library complexity ENCFF372SHI bed narrowPeak optimal idr thresholded peaks ENCSR000DMO ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF569FYX, ENCFF657PRI, ENCFF731UAI 1035407 ENCODE Processing Pipeline 68a0e176e9543319f5c7a612b4098c88 https://www.encodeproject.org/files/ENCFF372SHI/@@download/ENCFF372SHI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample poor library complexity ENCFF142TZG bed narrowPeak optimal idr thresholded peaks ENCSR808FFI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZKSCAN8-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF222SMQ, ENCFF224KDP, ENCFF361GVH 297054 ENCODE Processing Pipeline fe10afd1e58d66ccf4a66a3ebdb7ed17 https://www.encodeproject.org/files/ENCFF142TZG/@@download/ENCFF142TZG.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CHF bed narrowPeak optimal idr thresholded peaks ENCSR000BQL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFATC1-human DNA see document see document False 2012-02-29 ENCODE 234700 ENCODE Consortium Analysis Working Group e86ad868e90ad5be56aa38b8f5cd3ab1 https://www.encodeproject.org/files/ENCFF002CHF/@@download/ENCFF002CHF.bed.gz hg19 archived low read length, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF409QJU bed narrowPeak optimal idr thresholded peaks ENCSR000BQL ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFATC1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF186XBP, ENCFF838ATU, ENCFF948UJN 261869 ENCODE Processing Pipeline 06580d3142d49ee39bae07fed781c8f3 https://www.encodeproject.org/files/ENCFF409QJU/@@download/ENCFF409QJU.bed.gz hg19 released low read length, inconsistent platforms biological replicates with identical biosample ENCFF563AEQ bed narrowPeak optimal idr thresholded peaks ENCSR038XIA ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF444-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF456TVJ, ENCFF904GRI, ENCFF994VHQ 505686 ENCODE Processing Pipeline 6af821ae27914006130f70fc0c4f2ea3 https://www.encodeproject.org/files/ENCFF563AEQ/@@download/ENCFF563AEQ.bed.gz hg19 released low read depth experiment not submitted to GEO partially characterized antibody ENCFF002CQE bed narrowPeak optimal idr thresholded peaks ENCSR000EAR ChIP-seq EFO:0005347 GM15510 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 390371 ENCODE Consortium Analysis Working Group 7dcd217eec787bc084b5d1b5b6af9089 https://www.encodeproject.org/files/ENCFF002CQE/@@download/ENCFF002CQE.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CVI bed narrowPeak optimal idr thresholded peaks ENCSR000EFH ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens MAFK-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF000YDD, ENCFF000YDE 927902 ENCODE Consortium Analysis Working Group 657bd8cabd9ba234ac3cd467071a665a https://www.encodeproject.org/files/ENCFF002CVI/@@download/ENCFF002CVI.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF593MEB bed narrowPeak optimal idr thresholded peaks ENCSR000EFH ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens MAFK-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF399JDJ, ENCFF497YWO, ENCFF886HLJ 821055 ENCODE Processing Pipeline 038696f5c8018caee2117388898f53fd https://www.encodeproject.org/files/ENCFF593MEB/@@download/ENCFF593MEB.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DCK bed narrowPeak optimal idr thresholded peaks ENCSR000DRR ChIP-seq EFO:0001161 GM12874 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HGN, ENCFF001HGS 728006 ENCODE Consortium Analysis Working Group daec8fe2e58bc51274a177715c9898b6 https://www.encodeproject.org/files/ENCFF002DCK/@@download/ENCFF002DCK.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity insufficient read depth ENCFF446MKT bed narrowPeak optimal idr thresholded peaks ENCSR000DRR ChIP-seq EFO:0001161 GM12874 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF445XBY, ENCFF653LVL, ENCFF961AGO 645559 ENCODE Processing Pipeline 6e25d6e01e8d314d42456184df9c22c7 https://www.encodeproject.org/files/ENCFF446MKT/@@download/ENCFF446MKT.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity insufficient read depth ENCFF002CHU bed narrowPeak optimal idr thresholded peaks ENCSR000BJE ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SIX5-human DNA see document see document False 2011-07-18 ENCODE 99895 ENCODE Consortium Analysis Working Group c85b1e6990282d9fb581b19de053c875 https://www.encodeproject.org/files/ENCFF002CHU/@@download/ENCFF002CHU.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from severe bottlenecking ENCFF606WUV bed narrowPeak optimal idr thresholded peaks ENCSR000BJE ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SIX5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF491NVT, ENCFF557TKJ, ENCFF771CBA 91820 ENCODE Processing Pipeline f5cc0ab0fab5aa90cb4d068d46f09c70 https://www.encodeproject.org/files/ENCFF606WUV/@@download/ENCFF606WUV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample severe bottlenecking ENCFF854CXA bed narrowPeak optimal idr thresholded peaks ENCSR018MQH ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF579-human DNA False 2017-03-08 ENCODE 1, 2 ENCFF001TDO, ENCFF052VEU, ENCFF125FFS, ENCFF932GYE 286701 ENCODE Processing Pipeline 602f9d96c82a8dcb90a1a8f51a83399d https://www.encodeproject.org/files/ENCFF854CXA/@@download/ENCFF854CXA.bed.gz hg19 released mild to moderate bottlenecking, inconsistent platforms, moderate library complexity ENCFF002CEC bed narrowPeak optimal idr thresholded peaks ENCSR000ARE ChIP-seq CL:0002327 mammary epithelial cell primary cell Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 114062 ENCODE Consortium Analysis Working Group 9ad516bd083ae2f12703ee84eb62c55d https://www.encodeproject.org/files/ENCFF002CEC/@@download/ENCFF002CEC.bed.gz hg19 archived low read length, borderline replicate concordance, inconsistent platforms missing derived_from ENCFF743FCW bed narrowPeak optimal idr thresholded peaks ENCSR000ARE ChIP-seq CL:0002327 mammary epithelial cell primary cell Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF015WVN, ENCFF357WXQ, ENCFF385LJM 144063 ENCODE Processing Pipeline 3dfb5f076fde87b7896b22f33633d866 https://www.encodeproject.org/files/ENCFF743FCW/@@download/ENCFF743FCW.bed.gz hg19 released low read length, borderline replicate concordance, inconsistent platforms ENCFF249CSQ bed narrowPeak optimal idr thresholded peaks ENCSR142IGM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-CEBPA-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF381PAX, ENCFF448PNP, ENCFF611TJW 948825 ENCODE Processing Pipeline c7792cdddbdc1d4b7b0a620f2c98b5fa https://www.encodeproject.org/files/ENCFF249CSQ/@@download/ENCFF249CSQ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF517YCC bed narrowPeak optimal idr thresholded peaks ENCSR000EFO ChIP-seq EFO:0002067 K562 cell line Homo sapiens CUX1-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF599SPU, ENCFF675GZY, ENCFF725FYI 119496 ENCODE Processing Pipeline 2b856671dd29071ba3eec1e8a4e8f69d https://www.encodeproject.org/files/ENCFF517YCC/@@download/ENCFF517YCC.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample missing control alignments ENCFF002CHJ bed narrowPeak optimal idr thresholded peaks ENCSR000BHD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens PAX5-human DNA see document see document False 2011-07-18 ENCODE 489675 ENCODE Consortium Analysis Working Group 92fda2a5af18eacb65aacdddbd0021ed https://www.encodeproject.org/files/ENCFF002CHJ/@@download/ENCFF002CHJ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF339KUO bed narrowPeak optimal idr thresholded peaks ENCSR000BHD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens PAX5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF252RWC, ENCFF565JQY, ENCFF915CCU 371645 ENCODE Processing Pipeline 6e212171131e6ee7f7d1bc41c78a0c29 https://www.encodeproject.org/files/ENCFF339KUO/@@download/ENCFF339KUO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF002CFG bed narrowPeak optimal idr thresholded peaks ENCSR000BPS ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour ATF3-human DNA see document see document False 2012-02-29 ENCODE 171585 ENCODE Consortium Analysis Working Group 855e1ac06f0ade38ebf68e24b50e1240 https://www.encodeproject.org/files/ENCFF002CFG/@@download/ENCFF002CFG.bed.gz hg19 archived low read length missing derived_from, biological replicates with identical biosample ENCFF913MUA bed narrowPeak optimal idr thresholded peaks ENCSR000BPS ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour ATF3-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF247OWV, ENCFF524QEN, ENCFF556COW 193791 ENCODE Processing Pipeline 88ca13499d91733e358e058e7c845c7c https://www.encodeproject.org/files/ENCFF913MUA/@@download/ENCFF913MUA.bed.gz hg19 released low read length biological replicates with identical biosample ENCFF166NFR bed narrowPeak optimal idr thresholded peaks ENCSR184SVO ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZBTB26-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF365ZGD, ENCFF561ICJ, ENCFF827NBF 272344 ENCODE Processing Pipeline 067e2e5d44a2f5ff4be900c6a27fe9d6 https://www.encodeproject.org/files/ENCFF166NFR/@@download/ENCFF166NFR.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF474KHR bed narrowPeak optimal idr thresholded peaks ENCSR000BOX ChIP-seq EFO:0005234 PFSK-1 cell line Homo sapiens REST-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF655RQF, ENCFF851EOI, ENCFF859NJV 317492 ENCODE Processing Pipeline 54db63fc2e1d8bdcef504e2e0453ac68 https://www.encodeproject.org/files/ENCFF474KHR/@@download/ENCFF474KHR.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample missing control alignments ENCFF540CNJ bed narrowPeak optimal idr thresholded peaks ENCSR704IGU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZGPAT-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF495SZK, ENCFF834NKY, ENCFF977RZR 793976 ENCODE Processing Pipeline d9dc664bcc205c78313cb5ec41b987ac https://www.encodeproject.org/files/ENCFF540CNJ/@@download/ENCFF540CNJ.bed.gz hg19 released mild to moderate bottlenecking, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CYL bed narrowPeak optimal idr thresholded peaks ENCSR000DOD ChIP-seq EFO:0002067 K562 cell line Homo sapiens GTF3C2-human DNA see document see document False 2011-10-29 ENCODE 38890 ENCODE Consortium Analysis Working Group 7838d8b05a9dbfdedb09c34d31bbe8e8 https://www.encodeproject.org/files/ENCFF002CYL/@@download/ENCFF002CYL.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CSW bed narrowPeak optimal idr thresholded peaks ENCSR000EDJ ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens NRF1-human DNA see document see document False 2011-10-29 ENCODE 70752 ENCODE Consortium Analysis Working Group 766b48fd144a543f7d0430424014f1c2 https://www.encodeproject.org/files/ENCFF002CSW/@@download/ENCFF002CSW.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CFN bed narrowPeak optimal idr thresholded peaks ENCSR000BQO ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour FOSL2-human DNA see document see document False 2012-02-29 ENCODE 690173 ENCODE Consortium Analysis Working Group 880d3868aaf5aefbafbb19364ada7b71 https://www.encodeproject.org/files/ENCFF002CFN/@@download/ENCFF002CFN.bed.gz hg19 archived low read length, mild to moderate bottlenecking biological replicates with identical biosample, missing derived_from missing control alignments ENCFF374ZCG bed narrowPeak optimal idr thresholded peaks ENCSR000BQO ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour FOSL2-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF431AIS, ENCFF912FKQ, ENCFF925WYW 548131 ENCODE Processing Pipeline 7fcebc7d804196dc801fd7220e7c96b9 https://www.encodeproject.org/files/ENCFF374ZCG/@@download/ENCFF374ZCG.bed.gz hg19 released low read length, mild to moderate bottlenecking biological replicates with identical biosample missing control alignments ENCFF002CFU bed narrowPeak optimal idr thresholded peaks ENCSR000BQP ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour REST-human DNA see document see document False 2012-02-29 ENCODE 277807 ENCODE Consortium Analysis Working Group 76aa22412831088c081ae5917f94bc40 https://www.encodeproject.org/files/ENCFF002CFU/@@download/ENCFF002CFU.bed.gz hg19 archived low read length, mild to moderate bottlenecking biological replicates with identical biosample, missing derived_from ENCFF136RBA bed narrowPeak optimal idr thresholded peaks ENCSR000BQP ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour REST-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF621APS, ENCFF719IGT, ENCFF792BHA 334443 ENCODE Processing Pipeline ca1ab14e6137d333433c3bb3c0d8b7bd https://www.encodeproject.org/files/ENCFF136RBA/@@download/ENCFF136RBA.bed.gz hg19 released low read length, mild to moderate bottlenecking biological replicates with identical biosample ENCFF501KPU bed narrowPeak optimal idr thresholded peaks ENCSR029LBT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXP1-human DNA False 2017-01-27 ENCODE 3, 4 ENCFF001TDO, ENCFF303DTM, ENCFF570HWZ, ENCFF592IDM 172257 ENCODE Processing Pipeline 95e02ff01b0c2f30969d7deb12d46698 https://www.encodeproject.org/files/ENCFF501KPU/@@download/ENCFF501KPU.bed.gz hg19 released antibody characterized with exemption ENCFF002CWV bed narrowPeak optimal idr thresholded peaks ENCSR000EGU ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute IRF1-human DNA see document see document False 2011-10-29 ENCODE 35503 ENCODE Consortium Analysis Working Group fde2ede3ff6eb70e03a7d29c4f98aa0f https://www.encodeproject.org/files/ENCFF002CWV/@@download/ENCFF002CWV.bed.gz hg19 archived control low read depth, low read length, low read depth, borderline replicate concordance, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF730RUF bed narrowPeak optimal idr thresholded peaks ENCSR000EGU ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute IRF1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF219ASD, ENCFF467GRI, ENCFF879FJY 28306 ENCODE Processing Pipeline a6f5b7194e601a38cffb1e0c847da96c https://www.encodeproject.org/files/ENCFF730RUF/@@download/ENCFF730RUF.bed.gz hg19 released control low read depth, low read length, low read depth, borderline replicate concordance, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CYC bed narrowPeak optimal idr thresholded peaks ENCSR000FAU ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour STAT1-human DNA see document see document False 2011-10-29 ENCODE 37650 ENCODE Consortium Analysis Working Group bb6587b53d0ad228531645c844e82661 https://www.encodeproject.org/files/ENCFF002CYC/@@download/ENCFF002CYC.bed.gz hg19 archived control low read depth, borderline replicate concordance biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length ENCFF254MPF bed narrowPeak optimal idr thresholded peaks ENCSR000FAU ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour STAT1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF081YAN, ENCFF873CLE, ENCFF881JMT 23891 ENCODE Processing Pipeline cc0458db40e7d908cb8702d577c43933 https://www.encodeproject.org/files/ENCFF254MPF/@@download/ENCFF254MPF.bed.gz hg19 released control low read depth, borderline replicate concordance biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CWR bed narrowPeak optimal idr thresholded peaks ENCSR000DOE ChIP-seq EFO:0002067 K562 cell line Homo sapiens GTF2B-human DNA see document see document False 2011-10-29 ENCODE 72817 ENCODE Consortium Analysis Working Group 75b9839093fea57946dadfdef9ed7efd https://www.encodeproject.org/files/ENCFF002CWR/@@download/ENCFF002CWR.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length extremely low read depth ENCFF002CGJ bed narrowPeak optimal idr thresholded peaks ENCSR000BIY ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens estradiol 10 nM 1 hour ESR1-human DNA see document see document False 2011-07-18 ENCODE 392007 ENCODE Consortium Analysis Working Group 9e0bebb6315e2ad5a66bd06d78e7107e https://www.encodeproject.org/files/ENCFF002CGJ/@@download/ENCFF002CGJ.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF248QIW bed narrowPeak optimal idr thresholded peaks ENCSR000BIY ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens estradiol 10 nM 1 hour ESR1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF607IFK, ENCFF657XCG, ENCFF895CZK 302156 ENCODE Processing Pipeline a63a02eb5139b8b005ec17f233522dd5 https://www.encodeproject.org/files/ENCFF248QIW/@@download/ENCFF248QIW.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF755AXA bed narrowPeak optimal idr thresholded peaks ENCSR000BRD ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour FOXA1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF420TYJ, ENCFF591IMY, ENCFF605IMH 541926 ENCODE Processing Pipeline 7833f49f8263628cdb770c7d08714a7d https://www.encodeproject.org/files/ENCFF755AXA/@@download/ENCFF755AXA.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF002CIT bed narrowPeak optimal idr thresholded peaks ENCSR000BIP ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens BCL11A-human DNA see document see document False 2011-07-18 ENCODE 52410 ENCODE Consortium Analysis Working Group 2c0c565a76897f3160d301f7ec998e47 https://www.encodeproject.org/files/ENCFF002CIT/@@download/ENCFF002CIT.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from ENCFF002CKF bed narrowPeak optimal idr thresholded peaks ENCSR000BIE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CTCF-human DNA see document see document False 2011-07-18 ENCODE 1191204 ENCODE Consortium Analysis Working Group 1377acce5b4f8944e3f6ca12debd45d0 https://www.encodeproject.org/files/ENCFF002CKF/@@download/ENCFF002CKF.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample missing control alignments ENCFF237OKO bed narrowPeak optimal idr thresholded peaks ENCSR000BIE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CTCF-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF297IFU, ENCFF327TVJ, ENCFF487OYC 948053 ENCODE Processing Pipeline 13e337503a6a9deb5c4953281268d9fa https://www.encodeproject.org/files/ENCFF237OKO/@@download/ENCFF237OKO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample missing control alignments ENCFF002CUU bed narrowPeak optimal idr thresholded peaks ENCSR000EDW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SMC3-human DNA see document see document False 2011-10-29 ENCODE 780473 ENCODE Consortium Analysis Working Group bcc4a60fb4007598f27ba82185075807 https://www.encodeproject.org/files/ENCFF002CUU/@@download/ENCFF002CUU.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF525EJQ bed narrowPeak optimal idr thresholded peaks ENCSR000EDW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens SMC3-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF382SIS, ENCFF620MYW, ENCFF672PNA 593833 ENCODE Processing Pipeline 1b4f67a75954ebc5d1390e20bb29420b https://www.encodeproject.org/files/ENCFF525EJQ/@@download/ENCFF525EJQ.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002COK bed narrowPeak optimal idr thresholded peaks ENCSR000DZJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BHLHE40-human DNA see document see document False 2011-10-29 ENCODE 326289 ENCODE Consortium Analysis Working Group 100a70ef09b8815c8809ed9b799cd078 https://www.encodeproject.org/files/ENCFF002COK/@@download/ENCFF002COK.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment duplicate lane review, missing derived_from, biological replicates with identical biosample ENCFF853SOB bed narrowPeak optimal idr thresholded peaks ENCSR000DZJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BHLHE40-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF354WUJ, ENCFF512QTF, ENCFF909EYB 407249 ENCODE Processing Pipeline d964abe4d5ff7ce20874db90631d395f https://www.encodeproject.org/files/ENCFF853SOB/@@download/ENCFF853SOB.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment duplicate lane review, biological replicates with identical biosample ENCFF002CLQ bed narrowPeak optimal idr thresholded peaks ENCSR000BRT ChIP-seq EFO:0002067 K562 cell line Homo sapiens CBX3-human DNA see document see document False 2012-02-29 ENCODE 466076 ENCODE Consortium Analysis Working Group 3995b6b545fecf8ce9fe78928e2563f5 https://www.encodeproject.org/files/ENCFF002CLQ/@@download/ENCFF002CLQ.bed.gz hg19 archived low read length, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF455TDM bed narrowPeak optimal idr thresholded peaks ENCSR000BRT ChIP-seq EFO:0002067 K562 cell line Homo sapiens CBX3-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF064WFD, ENCFF653UJT, ENCFF831QNI 465905 ENCODE Processing Pipeline 5c2ed80d53a4008c80594b13b59766fa https://www.encodeproject.org/files/ENCFF455TDM/@@download/ENCFF455TDM.bed.gz hg19 released low read length, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample ENCFF002CPI bed narrowPeak optimal idr thresholded peaks ENCSR000DZK ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2011-10-29 ENCODE 214705 ENCODE Consortium Analysis Working Group f1588e9f5654438edefe7c3f56208975 https://www.encodeproject.org/files/ENCFF002CPI/@@download/ENCFF002CPI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF630NFM bed narrowPeak optimal idr thresholded peaks ENCSR000DZK ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF574RRB, ENCFF707YNJ, ENCFF998HJZ 276969 ENCODE Processing Pipeline 3b995de8b5a72e9d927f21ec57194d6c https://www.encodeproject.org/files/ENCFF630NFM/@@download/ENCFF630NFM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CWO bed narrowPeak optimal idr thresholded peaks ENCSR000EFU ChIP-seq EFO:0002067 K562 cell line Homo sapiens ELK1-human DNA see document see document False 2012-08-20 ENCODE 71329 ENCODE Consortium Analysis Working Group 512f15c00d79972570f34a368bb388d7 https://www.encodeproject.org/files/ENCFF002CWO/@@download/ENCFF002CWO.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment duplicate lane review, missing derived_from, biological replicates with identical biosample ENCFF019PEL bed narrowPeak optimal idr thresholded peaks ENCSR000EFU ChIP-seq EFO:0002067 K562 cell line Homo sapiens ELK1-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF324CAS, ENCFF390VNW, ENCFF670YGF 72723 ENCODE Processing Pipeline 6bef1c87b6be232eb240e302cc14670d https://www.encodeproject.org/files/ENCFF019PEL/@@download/ENCFF019PEL.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment duplicate lane review, biological replicates with identical biosample ENCFF002CYP bed narrowPeak optimal idr thresholded peaks ENCSR000EHG ChIP-seq EFO:0002067 K562 cell line Homo sapiens USF2-human DNA see document see document False 2011-10-29 ENCODE 82850 ENCODE Consortium Analysis Working Group 23baed3c990373140369f62e3ea7b8d4 https://www.encodeproject.org/files/ENCFF002CYP/@@download/ENCFF002CYP.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF150VTD bed narrowPeak optimal idr thresholded peaks ENCSR000EHG ChIP-seq EFO:0002067 K562 cell line Homo sapiens USF2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF129CHM, ENCFF505EIB, ENCFF935ZZG 66396 ENCODE Processing Pipeline 374d6db908c4b58361da86e304486f3d https://www.encodeproject.org/files/ENCFF150VTD/@@download/ENCFF150VTD.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DCY bed narrowPeak optimal idr thresholded peaks ENCSR000DUH ChIP-seq CL:1001608 foreskin fibroblast primary cell Homo sapiens CTCF-human DNA see document see document False 2012-02-29 ENCODE 1 ENCFF001HNZ 680211 ENCODE Consortium Analysis Working Group e3c022ea9f7be7acf4d1ea7ccf3b03e6 https://www.encodeproject.org/files/ENCFF002DCY/@@download/ENCFF002DCY.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity ENCFF002CUI bed narrowPeak optimal idr thresholded peaks ENCSR000EDZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAFK-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF000XTW, ENCFF000XTX 941711 ENCODE Consortium Analysis Working Group f5175a370266f5313c26591a5795d246 https://www.encodeproject.org/files/ENCFF002CUI/@@download/ENCFF002CUI.bed.gz hg19 archived low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF800XTT bed narrowPeak optimal idr thresholded peaks ENCSR000EDZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAFK-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF227YDJ, ENCFF422YLS, ENCFF700LQD 806864 ENCODE Processing Pipeline 438973c4146937122e69e33c208d92a0 https://www.encodeproject.org/files/ENCFF800XTT/@@download/ENCFF800XTT.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF048JKT bed narrowPeak optimal idr thresholded peaks ENCSR000BGF ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF022KXM, ENCFF562ZXJ, ENCFF632AEM 104093 ENCODE Processing Pipeline 821185bde94cd93d206c629d07774040 https://www.encodeproject.org/files/ENCFF048JKT/@@download/ENCFF048JKT.bed.gz hg19 released low read length, low read depth, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CPM bed narrowPeak optimal idr thresholded peaks ENCSR000DYX ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SIN3A-human DNA see document see document False 2012-05-14 ENCODE 272860 ENCODE Consortium Analysis Working Group 9a2d2ac67ccbd57c24a484a18ffba9dd https://www.encodeproject.org/files/ENCFF002CPM/@@download/ENCFF002CPM.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF778DJD bed narrowPeak optimal idr thresholded peaks ENCSR000DYX ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SIN3A-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF352QMZ, ENCFF441TSO, ENCFF692VTI 273669 ENCODE Processing Pipeline 838d5be06c1c3bcc99da951b01725845 https://www.encodeproject.org/files/ENCFF778DJD/@@download/ENCFF778DJD.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CHR bed narrowPeak optimal idr thresholded peaks ENCSR000BMY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RAD21-human DNA see document see document False 2011-07-18 ENCODE 784543 ENCODE Consortium Analysis Working Group 7ddac173d34f70fa26a89f569581c19f https://www.encodeproject.org/files/ENCFF002CHR/@@download/ENCFF002CHR.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF753RGL bed narrowPeak optimal idr thresholded peaks ENCSR000BMY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RAD21-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF436OWU, ENCFF510UIU, ENCFF601GLM 688110 ENCODE Processing Pipeline c297cd9f39ea9fa917cc79632b77b70d https://www.encodeproject.org/files/ENCFF753RGL/@@download/ENCFF753RGL.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CUW bed narrowPeak optimal idr thresholded peaks ENCSR000EEL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TBP-human DNA see document see document False 2011-10-29 ENCODE 347532 ENCODE Consortium Analysis Working Group cdaf88adfab80c521ffb5893d3aa8f32 https://www.encodeproject.org/files/ENCFF002CUW/@@download/ENCFF002CUW.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF584CNF bed narrowPeak optimal idr thresholded peaks ENCSR000EEL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TBP-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF469IRK, ENCFF791JVM, ENCFF967KDT 324761 ENCODE Processing Pipeline f69505c8d4f6d551de135c08ff65c0d3 https://www.encodeproject.org/files/ENCFF584CNF/@@download/ENCFF584CNF.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CXI bed narrowPeak optimal idr thresholded peaks ENCSR000EGR ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFYA-human DNA see document see document False 2011-10-29 ENCODE 97329 ENCODE Consortium Analysis Working Group 59e4f965b7bd0a75446915be7160aa9b https://www.encodeproject.org/files/ENCFF002CXI/@@download/ENCFF002CXI.bed.gz hg19 archived mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length extremely low read depth ENCFF012VES bed narrowPeak optimal idr thresholded peaks ENCSR000EGR ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFYA-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF003WYE, ENCFF690KLI, ENCFF711NWL 77635 ENCODE Processing Pipeline ead81452d9d50afa34b4539574d408f5 https://www.encodeproject.org/files/ENCFF012VES/@@download/ENCFF012VES.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity biological replicates with identical biosample insufficient read depth, insufficient read length extremely low read depth ENCFF002CYU bed narrowPeak optimal idr thresholded peaks ENCSR000EVX ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF274-human DNA see document see document False 2011-10-29 ENCODE 47845 ENCODE Consortium Analysis Working Group fc3a851a27dfec1fdf9cd1eab0a216e3 https://www.encodeproject.org/files/ENCFF002CYU/@@download/ENCFF002CYU.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF344QKL bed narrowPeak optimal idr thresholded peaks ENCSR000EVX ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF274-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF479ZWB, ENCFF854CCF, ENCFF904PBE 56693 ENCODE Processing Pipeline e1dcb354f98030f0cad5ea10cb6b8428 https://www.encodeproject.org/files/ENCFF344QKL/@@download/ENCFF344QKL.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample ENCFF002CYR bed narrowPeak optimal idr thresholded peaks ENCSR000EGP ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF143-human DNA see document see document False 2011-10-29 ENCODE 686281 ENCODE Consortium Analysis Working Group 0a9d8e90c7bf4abb3e7a2e3320eba6b3 https://www.encodeproject.org/files/ENCFF002CYR/@@download/ENCFF002CYR.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF114IWY bed narrowPeak optimal idr thresholded peaks ENCSR000EGP ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF143-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF178ANU, ENCFF971SGR, ENCFF984KWO 507074 ENCODE Processing Pipeline 2080efa4f0591f3162e78e92da027eb5 https://www.encodeproject.org/files/ENCFF114IWY/@@download/ENCFF114IWY.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF195PBG bed narrowPeak optimal idr thresholded peaks ENCSR000DYQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ESRRA-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF430QIK, ENCFF894NTO, ENCFF927WFK 93614 ENCODE Processing Pipeline 3efe3e9ba0dd7bc225ff4fec1d74a0a8 https://www.encodeproject.org/files/ENCFF195PBG/@@download/ENCFF195PBG.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF105IPJ bed narrowPeak optimal idr thresholded peaks ENCSR596FEL ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-RBPJ-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF335YRO, ENCFF675QKT, ENCFF690AVX 518864 ENCODE Processing Pipeline 86f3c87d2786151111b6f561b46fe6ac https://www.encodeproject.org/files/ENCFF105IPJ/@@download/ENCFF105IPJ.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF002CXS bed narrowPeak optimal idr thresholded peaks ENCSR000EGF ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2012-05-14 ENCODE 112983 ENCODE Consortium Analysis Working Group 92403e1ae30fd8ab1f735a7344bbfbd3 https://www.encodeproject.org/files/ENCFF002CXS/@@download/ENCFF002CXS.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF296CNQ bed narrowPeak optimal idr thresholded peaks ENCSR000EGF ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF039RTS, ENCFF388ATO, ENCFF932UHC 185689 ENCODE Processing Pipeline 96912e3d9f88029951abcd019f3a5721 https://www.encodeproject.org/files/ENCFF296CNQ/@@download/ENCFF296CNQ.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CYW bed narrowPeak optimal idr thresholded peaks ENCSR000DOP ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens afimoxifene 1.0 μM 12.0 hour FOS-human DNA see document see document False 2012-05-14 ENCODE 1772744 ENCODE Consortium Analysis Working Group f97dcb21fe0f2a4472eb1ab11b495967 https://www.encodeproject.org/files/ENCFF002CYW/@@download/ENCFF002CYW.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization biological replicates with identical biosample, missing derived_from, duplicate lane review ENCFF111IPG bed narrowPeak optimal idr thresholded peaks ENCSR000DOP ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens afimoxifene 1.0 μM 12.0 hour FOS-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF177VFU, ENCFF245IKC, ENCFF364ZNH 1625733 ENCODE Processing Pipeline 46234c121cddbc9360b1cf51d8a0bc48 https://www.encodeproject.org/files/ENCFF111IPG/@@download/ENCFF111IPG.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization biological replicates with identical biosample, duplicate lane review ENCFF002CWT bed narrowPeak optimal idr thresholded peaks ENCSR000DOB ChIP-seq EFO:0002067 K562 cell line Homo sapiens HMGN3-human DNA see document see document False 2011-10-29 ENCODE 320736 ENCODE Consortium Analysis Working Group 9784935821cde1c75e773aba4c415e7d https://www.encodeproject.org/files/ENCFF002CWT/@@download/ENCFF002CWT.bed.gz hg19 released low read length, mixed read lengths biological replicates with identical biosample, missing derived_from insufficient read length ENCFF244DQW bed narrowPeak optimal idr thresholded peaks ENCSR000DLG ChIP-seq EFO:0005352 GM20000 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF128FLJ, ENCFF192ODH, ENCFF780CML 438676 ENCODE Processing Pipeline 0c21dfd74bd1ff0c763735b180ac1d59 https://www.encodeproject.org/files/ENCFF244DQW/@@download/ENCFF244DQW.bed.gz hg19 released control low read depth, mild to moderate bottlenecking biological replicates with identical biosample insufficient read depth missing control alignments ENCFF002DBL bed narrowPeak optimal idr thresholded peaks ENCSR000DML ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1161292 ENCODE Consortium Analysis Working Group ea48635d4b9f9f1045e967c2f5e54d78 https://www.encodeproject.org/files/ENCFF002DBL/@@download/ENCFF002DBL.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF474NLG bed narrowPeak optimal idr thresholded peaks ENCSR000EFN ChIP-seq EFO:0002067 K562 cell line Homo sapiens HCFC1-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF317AIN, ENCFF386FIZ, ENCFF912AHN 236039 ENCODE Processing Pipeline fe108db88c03657b64f8b0ec52bd7c3e https://www.encodeproject.org/files/ENCFF474NLG/@@download/ENCFF474NLG.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CMX bed narrowPeak optimal idr thresholded peaks ENCSR000BMH ChIP-seq EFO:0002067 K562 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 477726 ENCODE Consortium Analysis Working Group ad2e68ab363f735a8ae9c4144c611460 https://www.encodeproject.org/files/ENCFF002CMX/@@download/ENCFF002CMX.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient replicate concordance ENCFF328XKC bed narrowPeak optimal idr thresholded peaks ENCSR000BMH ChIP-seq EFO:0002067 K562 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF223XFI, ENCFF701OSU, ENCFF720DVS 497639 ENCODE Processing Pipeline 01d30b98e8410f018839a27847bfd7fc https://www.encodeproject.org/files/ENCFF328XKC/@@download/ENCFF328XKC.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read depth, insufficient replicate concordance ENCFF002CUT bed narrowPeak optimal idr thresholded peaks ENCSR000EEA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RFX5-human DNA see document see document False 2011-10-29 ENCODE 157443 ENCODE Consortium Analysis Working Group c10b815febb8b315038eb377878d4075 https://www.encodeproject.org/files/ENCFF002CUT/@@download/ENCFF002CUT.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample missing control alignments ENCFF933GHY bed narrowPeak optimal idr thresholded peaks ENCSR000EEA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RFX5-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF003GUP, ENCFF304RUP, ENCFF777PZJ 138519 ENCODE Processing Pipeline 27647aa248b0cf30ae4671167b3b5fa0 https://www.encodeproject.org/files/ENCFF933GHY/@@download/ENCFF933GHY.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample missing control alignments ENCFF002DBH bed narrowPeak optimal idr thresholded peaks ENCSR000DMJ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MYC-human DNA see document see document False 2012-08-27 ENCODE 177271 ENCODE Consortium Analysis Working Group d814e2e5ed7d55614384b4e9cdee9a55 https://www.encodeproject.org/files/ENCFF002DBH/@@download/ENCFF002DBH.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF021KDL bed narrowPeak optimal idr thresholded peaks ENCSR000DMJ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MYC-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF341DDR, ENCFF373LWH, ENCFF808TOF 179969 ENCODE Processing Pipeline 806e8f646a0ceaa45c7766f5667a367e https://www.encodeproject.org/files/ENCFF021KDL/@@download/ENCFF021KDL.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF499QUE bed narrowPeak optimal idr thresholded peaks ENCSR000BLL ChIP-seq EFO:0001247 T47D cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour ESR1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF372ATJ, ENCFF593GDN, ENCFF664LLB 67651 ENCODE Processing Pipeline f67dc576679a3b4f475e5598c9bf2068 https://www.encodeproject.org/files/ENCFF499QUE/@@download/ENCFF499QUE.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample insufficient replicate concordance ENCFF788EBS bed narrowPeak optimal idr thresholded peaks ENCSR167KBO ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF316-human DNA False 2016-11-10 ENCODE 1, 2 ENCFF001TDO, ENCFF226IEC, ENCFF247ZEK, ENCFF792BGD 1540943 ENCODE Processing Pipeline 3a0d9fd7b87bc7f13bbf44c634b50a0c https://www.encodeproject.org/files/ENCFF788EBS/@@download/ENCFF788EBS.bed.gz hg19 released ENCFF932UEC bed narrowPeak optimal idr thresholded peaks ENCSR439OCL ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF407-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF013YBA, ENCFF197HUM, ENCFF858SYW 69547 ENCODE Processing Pipeline 59e0cbc48512175f74a3919e0576ad96 https://www.encodeproject.org/files/ENCFF932UEC/@@download/ENCFF932UEC.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF706SJZ bed narrowPeak optimal idr thresholded peaks ENCSR000EFP ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF384-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF319WWO, ENCFF722BEI, ENCFF913KLO 354973 ENCODE Processing Pipeline 8b78ea00785bf7a9dc6f64503042fe49 https://www.encodeproject.org/files/ENCFF706SJZ/@@download/ENCFF706SJZ.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CZR bed narrowPeak optimal idr thresholded peaks ENCSR000EXH ChIP-seq EFO:0005236 NT2/D1 cell line Homo sapiens SUZ12-human DNA see document see document False 2011-10-29 ENCODE 70181 ENCODE Consortium Analysis Working Group 2af0fe77853dcb21e8352e43c17f29c0 https://www.encodeproject.org/files/ENCFF002CZR/@@download/ENCFF002CZR.bed.gz hg19 archived biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length extremely low read depth ENCFF841RSF bed narrowPeak optimal idr thresholded peaks ENCSR000EXH ChIP-seq EFO:0005236 NT2/D1 cell line Homo sapiens SUZ12-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF203YKR, ENCFF258BUQ, ENCFF259PLY 114990 ENCODE Processing Pipeline f775fe62ab6cbe2bfc618f009a319d9b https://www.encodeproject.org/files/ENCFF841RSF/@@download/ENCFF841RSF.bed.gz hg19 released biological replicates with identical biosample insufficient read depth, insufficient read length extremely low read depth ENCFF002CPB bed narrowPeak optimal idr thresholded peaks ENCSR000DNN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFYA-human DNA see document see document False 2011-10-29 ENCODE 48248 ENCODE Consortium Analysis Working Group d951149e467a73e4637f374a626b67bb https://www.encodeproject.org/files/ENCFF002CPB/@@download/ENCFF002CPB.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF414JLN bed narrowPeak optimal idr thresholded peaks ENCSR000DNN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFYA-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF063ESL, ENCFF333CPM, ENCFF423EOR 21975 ENCODE Processing Pipeline 151656e4361aa7092b6b3591b2f30ddb https://www.encodeproject.org/files/ENCFF414JLN/@@download/ENCFF414JLN.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF867ERM bed narrowPeak optimal idr thresholded peaks ENCSR000DND ChIP-seq UBERON:0001264 pancreas tissue Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF329BNL, ENCFF417BGF, ENCFF427RBA 506571 ENCODE Processing Pipeline 5db1c38f26beabf07a70b2a3a8e67817 https://www.encodeproject.org/files/ENCFF867ERM/@@download/ENCFF867ERM.bed.gz hg19 released control low read depth, mild to moderate bottlenecking extremely low read depth, missing control alignments ENCFF002DDE bed narrowPeak optimal idr thresholded peaks ENCSR000DVA ChIP-seq CL:0002553 fibroblast of lung primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HQS, ENCFF001HQU 1047705 ENCODE Consortium Analysis Working Group 14aa397f7b3c83831889aed668d4fa68 https://www.encodeproject.org/files/ENCFF002DDE/@@download/ENCFF002DDE.bed.gz hg19 archived control low read depth, low read length, low read depth, inconsistent platforms ENCFF570FLB bed narrowPeak optimal idr thresholded peaks ENCSR000DVA ChIP-seq CL:0002553 fibroblast of lung primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF129FBO, ENCFF213JJM, ENCFF519REF 763178 ENCODE Processing Pipeline 86c192815799a1a048cd599e0a046fe5 https://www.encodeproject.org/files/ENCFF570FLB/@@download/ENCFF570FLB.bed.gz hg19 released control low read depth, low read length, low read depth, inconsistent platforms ENCFF002CKB bed narrowPeak optimal idr thresholded peaks ENCSR000BKE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ATF3-human DNA see document see document False 2011-07-18 ENCODE 83386 ENCODE Consortium Analysis Working Group 8db7f95c02a98255bad497b3abcab3d2 https://www.encodeproject.org/files/ENCFF002CKB/@@download/ENCFF002CKB.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF857YVK bed narrowPeak optimal idr thresholded peaks ENCSR000BKE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ATF3-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF291WLP, ENCFF414JVR, ENCFF725ZKM 73270 ENCODE Processing Pipeline 9b4d7d6214441c243d20fe05b2418338 https://www.encodeproject.org/files/ENCFF857YVK/@@download/ENCFF857YVK.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF002CUV bed narrowPeak optimal idr thresholded peaks ENCSR000EEO ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens insulin and 22-hydroxycholesterol 6.0 hour SREBF1-human DNA see document see document False 2011-10-29 ENCODE 69298 ENCODE Consortium Analysis Working Group 1ce43dcd4aef03944a74077ca1acebe5 https://www.encodeproject.org/files/ENCFF002CUV/@@download/ENCFF002CUV.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CJA bed narrowPeak optimal idr thresholded peaks ENCSR000BMT ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens NANOG-human DNA see document see document False 2011-07-18 ENCODE 108870 ENCODE Consortium Analysis Working Group 85375df67cc6902a9b09a7f7537c81f4 https://www.encodeproject.org/files/ENCFF002CJA/@@download/ENCFF002CJA.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read depth, poor library complexity, severe bottlenecking ENCFF379EPK bed narrowPeak optimal idr thresholded peaks ENCSR000BMT ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens NANOG-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF482QCD, ENCFF537QBW, ENCFF637UCH 146369 ENCODE Processing Pipeline 7ca39501c1ae70ddd76818ac016a1ea6 https://www.encodeproject.org/files/ENCFF379EPK/@@download/ENCFF379EPK.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms biological replicates with identical biosample insufficient read depth, poor library complexity, severe bottlenecking ENCFF002CIW bed narrowPeak optimal idr thresholded peaks ENCSR000BNS ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens FOSL1-human DNA see document see document False 2011-07-18 ENCODE 23367 ENCODE Consortium Analysis Working Group 87b3080e3d4809021de0b609dfd15d90 https://www.encodeproject.org/files/ENCFF002CIW/@@download/ENCFF002CIW.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF418RZE bed narrowPeak optimal idr thresholded peaks ENCSR000BNS ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens FOSL1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF338LQY, ENCFF754FCZ, ENCFF823FFU 22674 ENCODE Processing Pipeline 545aadabf867370d3f560aacd02b24a1 https://www.encodeproject.org/files/ENCFF418RZE/@@download/ENCFF418RZE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF420YHY bed narrowPeak optimal idr thresholded peaks ENCSR372GIN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CBX5-human DNA False 2016-10-27 ENCODE 1, 2 ENCFF001TDO, ENCFF454MFQ, ENCFF799MMA, ENCFF836SKU 204510 ENCODE Processing Pipeline f584a6cb5c5943f310fe7bc4badc95af https://www.encodeproject.org/files/ENCFF420YHY/@@download/ENCFF420YHY.bed.gz hg19 released mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity ENCFF388AJH bed narrowPeak optimal idr thresholded peaks ENCSR854MCV ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-IRF1-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF814SES, ENCFF857RCJ, ENCFF961ADP 272085 ENCODE Processing Pipeline 84c15f8be1f7b09a51e64536e6a6dd11 https://www.encodeproject.org/files/ENCFF388AJH/@@download/ENCFF388AJH.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, missing genetic modification characterization ENCFF881YDR bed narrowPeak optimal idr thresholded peaks ENCSR000DNI ChIP-seq UBERON:0002106 spleen tissue Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF250AFB, ENCFF307XCC, ENCFF310RCE 616195 ENCODE Processing Pipeline 57dc061a40055e9cafafda1448190a37 https://www.encodeproject.org/files/ENCFF881YDR/@@download/ENCFF881YDR.bed.gz hg19 released mild to moderate bottlenecking, low read depth, moderate library complexity control insufficient read depth, insufficient read depth missing control alignments ENCFF002CPY bed narrowPeak optimal idr thresholded peaks ENCSR000DNQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZZZ3-human DNA see document see document False 2011-10-29 ENCODE 20659 ENCODE Consortium Analysis Working Group ad7ed1123e1ab6fe0617cc27f0cc7b59 https://www.encodeproject.org/files/ENCFF002CPY/@@download/ENCFF002CPY.bed.gz hg19 archived low read depth biological replicates with identical biosample, missing derived_from control insufficient read depth, insufficient read length ENCFF310XJC bed narrowPeak optimal idr thresholded peaks ENCSR000DNQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZZZ3-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF063ECO, ENCFF833VKG, ENCFF908NXJ 11888 ENCODE Processing Pipeline c74d3fcbe69e36a64d3a973909d60c6a https://www.encodeproject.org/files/ENCFF310XJC/@@download/ENCFF310XJC.bed.gz hg19 released low read depth biological replicates with identical biosample control insufficient read depth, insufficient read length ENCFF002CGO bed narrowPeak optimal idr thresholded peaks ENCSR000BQK ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ATF2-human DNA see document see document False 2012-02-29 ENCODE 464879 ENCODE Consortium Analysis Working Group 1c594a9c3fd87caf450bd1216464eb34 https://www.encodeproject.org/files/ENCFF002CGO/@@download/ENCFF002CGO.bed.gz hg19 archived low read length, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF609KOY bed narrowPeak optimal idr thresholded peaks ENCSR000BQK ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ATF2-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF071BNB, ENCFF378GKG, ENCFF599NQC 516541 ENCODE Processing Pipeline 64817c03f12a08a77eb97b9c2fabe83d https://www.encodeproject.org/files/ENCFF609KOY/@@download/ENCFF609KOY.bed.gz hg19 released low read length, inconsistent platforms biological replicates with identical biosample ENCFF002DBD bed narrowPeak optimal idr thresholded peaks ENCSR000DMA ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1077102 ENCODE Consortium Analysis Working Group 691e48b1344e23067ee35e35c640d364 https://www.encodeproject.org/files/ENCFF002DBD/@@download/ENCFF002DBD.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length extremely low read depth ENCFF002CVS bed narrowPeak optimal idr thresholded peaks ENCSR000DOC ChIP-seq EFO:0002067 K562 cell line Homo sapiens BRF2-human DNA see document see document False 2011-10-29 ENCODE 29151 ENCODE Consortium Analysis Working Group f075234fcb2722a9724e3854f969ff0b https://www.encodeproject.org/files/ENCFF002CVS/@@download/ENCFF002CVS.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CZI bed narrowPeak optimal idr thresholded peaks ENCSR000DPB ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens afimoxifene 1.0 μM 36.0 hour STAT3-human DNA see document see document False 2011-10-29 ENCODE 888680 ENCODE Consortium Analysis Working Group 93572c874a066b8042857a6ef1951f7a https://www.encodeproject.org/files/ENCFF002CZI/@@download/ENCFF002CZI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF255XVM bed narrowPeak optimal idr thresholded peaks ENCSR000DPB ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens afimoxifene 1.0 μM 36.0 hour STAT3-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF496UPK, ENCFF691LNH, ENCFF819FYL 850994 ENCODE Processing Pipeline 07b01799230f5ce63cae89d51b676ccb https://www.encodeproject.org/files/ENCFF255XVM/@@download/ENCFF255XVM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CTS bed narrowPeak optimal idr thresholded peaks ENCSR000EDP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ARID3A-human DNA see document see document False 2012-05-14 ENCODE 450874 ENCODE Consortium Analysis Working Group 96ddd1511875610833d9f48a8d8656ed https://www.encodeproject.org/files/ENCFF002CTS/@@download/ENCFF002CTS.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF514OYL bed narrowPeak optimal idr thresholded peaks ENCSR000EDP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ARID3A-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF287ZJM, ENCFF542DWV, ENCFF723URK 413265 ENCODE Processing Pipeline 1b3c1634fb8c0f173c3d5f60070ce2e3 https://www.encodeproject.org/files/ENCFF514OYL/@@download/ENCFF514OYL.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DAD bed narrowPeak optimal idr thresholded peaks ENCSR000DNA ChIP-seq EFO:0001086 A549 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1165527 ENCODE Consortium Analysis Working Group 3315f9544c1bfca99b7e9de28d0d5313 https://www.encodeproject.org/files/ENCFF002DAD/@@download/ENCFF002DAD.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF300IYQ bed narrowPeak optimal idr thresholded peaks ENCSR000DNA ChIP-seq EFO:0001086 A549 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF290ZCZ, ENCFF537TSK, ENCFF865ANK 693513 ENCODE Processing Pipeline 654e0d3526208ce14b7a33232e365a5a https://www.encodeproject.org/files/ENCFF300IYQ/@@download/ENCFF300IYQ.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample ENCFF002CRT bed narrowPeak optimal idr thresholded peaks ENCSR000EDM ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens SMARCC1-human DNA see document see document False 2011-10-29 ENCODE 221854 ENCODE Consortium Analysis Working Group ff8534ffa69559b8992d93fd95368893 https://www.encodeproject.org/files/ENCFF002CRT/@@download/ENCFF002CRT.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CQU bed narrowPeak optimal idr thresholded peaks ENCSR000ECA ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens JUN-human DNA see document see document False 2011-10-29 ENCODE 58360 ENCODE Consortium Analysis Working Group eee0c531e65f9eb949a28b0641f87ffa https://www.encodeproject.org/files/ENCFF002CQU/@@download/ENCFF002CQU.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF402ELS bed narrowPeak optimal idr thresholded peaks ENCSR000ECA ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens JUN-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF115XCV, ENCFF622NKF, ENCFF961BTT 48603 ENCODE Processing Pipeline 1840846ef482a55692abf6313aec1279 https://www.encodeproject.org/files/ENCFF402ELS/@@download/ENCFF402ELS.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CRI bed narrowPeak optimal idr thresholded peaks ENCSR000ECD ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens USF2-human DNA see document see document False 2011-10-29 ENCODE 179232 ENCODE Consortium Analysis Working Group 94400560a37b1ac2bf50a0a09a410928 https://www.encodeproject.org/files/ENCFF002CRI/@@download/ENCFF002CRI.bed.gz hg19 archived low read length, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF749OBU bed narrowPeak optimal idr thresholded peaks ENCSR000ECD ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens USF2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF019JVF, ENCFF264NVN, ENCFF846OWC 152905 ENCODE Processing Pipeline 4b435ca82f521bf3df4bfd0f305c0d06 https://www.encodeproject.org/files/ENCFF749OBU/@@download/ENCFF749OBU.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DDO bed narrowPeak optimal idr thresholded peaks ENCSR000DWY ChIP-seq CL:0002553 fibroblast of lung primary cell Homo sapiens CTCF-human DNA see document see document False 2012-02-29 ENCODE 1 ENCFF001HVT 711922 ENCODE Consortium Analysis Working Group bc64fef4c49c1c68c531c03381fb685f https://www.encodeproject.org/files/ENCFF002DDO/@@download/ENCFF002DDO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF002CJO bed narrowPeak optimal idr thresholded peaks ENCSR000BHO ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 424230 ENCODE Consortium Analysis Working Group 8c2f6676e4f0bfee35ce23fb53b922e8 https://www.encodeproject.org/files/ENCFF002CJO/@@download/ENCFF002CJO.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample ENCFF202SNU bed narrowPeak optimal idr thresholded peaks ENCSR000BHO ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF084XPA, ENCFF361YHU, ENCFF967ZPP 484992 ENCODE Processing Pipeline 80c3d936154d88a4a35c94bd1f3b8842 https://www.encodeproject.org/files/ENCFF202SNU/@@download/ENCFF202SNU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002DAC bed narrowPeak optimal idr thresholded peaks ENCSR348AGV ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens SETDB1-human DNA see document see document False 2017-06-01 ENCODE 460702 ENCODE Consortium Analysis Working Group 5d5d24a11707ba48166091f5d4839bf0 https://www.encodeproject.org/files/ENCFF002DAC/@@download/ENCFF002DAC.bed.gz hg19 released low read length, mixed read lengths missing derived_from, experiment not submitted to GEO insufficient read length ENCFF002COW bed narrowPeak optimal idr thresholded peaks ENCSR000DZF ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MAX-human DNA see document see document False 2012-05-14 ENCODE 324987 ENCODE Consortium Analysis Working Group a923b6aa6919e536cb52d9f8be2487b4 https://www.encodeproject.org/files/ENCFF002COW/@@download/ENCFF002COW.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF083KVY bed narrowPeak optimal idr thresholded peaks ENCSR000DZF ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MAX-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF173DKW, ENCFF694JRS, ENCFF974XPG 337281 ENCODE Processing Pipeline 951409976105220a24dc6e8cf17d2090 https://www.encodeproject.org/files/ENCFF083KVY/@@download/ENCFF083KVY.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF295TJG bed narrowPeak optimal idr thresholded peaks ENCSR959OMS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-SAP130-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF121PMC, ENCFF190UUO, ENCFF848YTC 1213040 ENCODE Processing Pipeline 7dbde427a24bcdfb4c7254eecd81f278 https://www.encodeproject.org/files/ENCFF295TJG/@@download/ENCFF295TJG.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CHL bed narrowPeak optimal idr thresholded peaks ENCSR000BGR ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens PBX3-human DNA see document see document False 2011-07-18 ENCODE 256644 ENCODE Consortium Analysis Working Group 74d56b36de93116ca951da4d1b0fc189 https://www.encodeproject.org/files/ENCFF002CHL/@@download/ENCFF002CHL.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient replicate concordance ENCFF717IXP bed narrowPeak optimal idr thresholded peaks ENCSR000BGR ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens PBX3-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF312KOJ, ENCFF961XVK, ENCFF999YFK 202822 ENCODE Processing Pipeline f39e6439756dca581c82f686dd30b485 https://www.encodeproject.org/files/ENCFF717IXP/@@download/ENCFF717IXP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient replicate concordance ENCFF002DBZ bed narrowPeak optimal idr thresholded peaks ENCSR000DPV ChIP-seq NTR:0000481 AG10803 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001GXX, ENCFF001GYE 993535 ENCODE Consortium Analysis Working Group c3f6929e66ef953454d578c9d2204936 https://www.encodeproject.org/files/ENCFF002DBZ/@@download/ENCFF002DBZ.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms NTR biosample ENCFF746CIL bed narrowPeak optimal idr thresholded peaks ENCSR000DPV ChIP-seq NTR:0000481 AG10803 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF025STW, ENCFF229WQW, ENCFF934ZVZ 805043 ENCODE Processing Pipeline a854e71bdfcc17eb98e8c2ff896d8bbb https://www.encodeproject.org/files/ENCFF746CIL/@@download/ENCFF746CIL.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms NTR biosample ENCFF002CIG bed narrowPeak optimal idr thresholded peaks ENCSR000BIL ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 335450 ENCODE Consortium Analysis Working Group 5f2bb1c4cc1250ef7ae35e464dcd390b https://www.encodeproject.org/files/ENCFF002CIG/@@download/ENCFF002CIG.bed.gz hg19 archived control low read depth, low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF887VSS bed narrowPeak optimal idr thresholded peaks ENCSR000BIL ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF333UMD, ENCFF409BYD, ENCFF725HKP 439631 ENCODE Processing Pipeline d3b237e3899e70e156920354564054ab https://www.encodeproject.org/files/ENCFF887VSS/@@download/ENCFF887VSS.bed.gz hg19 released control low read depth, low read length, low read depth biological replicates with identical biosample ENCFF002CUM bed narrowPeak optimal idr thresholded peaks ENCSR000EEH ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NRF1-human DNA see document see document False 2011-10-29 ENCODE 52778 ENCODE Consortium Analysis Working Group d5d6942ab0b56b0696a204cbee6d7d0a https://www.encodeproject.org/files/ENCFF002CUM/@@download/ENCFF002CUM.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF972NIR bed narrowPeak optimal idr thresholded peaks ENCSR000EEH ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NRF1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF228KKV, ENCFF864QJF, ENCFF966VOH 38996 ENCODE Processing Pipeline 9279471da999b426ccbb6fc9df0cb304 https://www.encodeproject.org/files/ENCFF972NIR/@@download/ENCFF972NIR.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF789WBV bed narrowPeak optimal idr thresholded peaks ENCSR340BXT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KAT7-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF220XZR, ENCFF330KXU, ENCFF570KPZ 329429 ENCODE Processing Pipeline 17ddadd5d0b6c439f1969776b27146a8 https://www.encodeproject.org/files/ENCFF789WBV/@@download/ENCFF789WBV.bed.gz hg19 released borderline replicate concordance, missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF002COU bed narrowPeak optimal idr thresholded peaks ENCSR000EUJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IKZF1-human DNA see document see document False 2012-05-14 ENCODE 242594 ENCODE Consortium Analysis Working Group 4b26f9f15c2b8820c627e516850e9802 https://www.encodeproject.org/files/ENCFF002COU/@@download/ENCFF002COU.bed.gz hg19 archived low read length, low read depth missing derived_from control insufficient read depth ENCFF073XZC bed narrowPeak optimal idr thresholded peaks ENCSR000EUJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IKZF1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF330XDW, ENCFF723VGS, ENCFF742JAC 239645 ENCODE Processing Pipeline 1e25bdbd10c76538c1fc79f86e4ff09f https://www.encodeproject.org/files/ENCFF073XZC/@@download/ENCFF073XZC.bed.gz hg19 released low read length, low read depth control insufficient read depth ENCFF002CYT bed narrowPeak optimal idr thresholded peaks ENCSR000EWE ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF274-human DNA see document see document False 2011-10-29 ENCODE 7610 ENCODE Consortium Analysis Working Group b832826c9a2c89cd02efba3c468be676 https://www.encodeproject.org/files/ENCFF002CYT/@@download/ENCFF002CYT.bed.gz hg19 archived missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF836LBG bed narrowPeak optimal idr thresholded peaks ENCSR000EWE ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF274-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF337RTD, ENCFF556HBG, ENCFF565OZP 7351 ENCODE Processing Pipeline ee40819a3e319921e26d72427860725d https://www.encodeproject.org/files/ENCFF836LBG/@@download/ENCFF836LBG.bed.gz hg19 released biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CXT bed narrowPeak optimal idr thresholded peaks ENCSR000EHQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR3G-human DNA see document see document False 2011-10-29 ENCODE 4627 ENCODE Consortium Analysis Working Group bda0160eadd3d7e99ccac755fa0b2e2c https://www.encodeproject.org/files/ENCFF002CXT/@@download/ENCFF002CXT.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF319HLW bed narrowPeak optimal idr thresholded peaks ENCSR618ICR ChIP-seq EFO:0001086 A549 cell line Homo sapiens RCOR1-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF105LXO, ENCFF348XCJ, ENCFF821INE 14457 ENCODE Processing Pipeline 13a3b524ef8f07cfa68348b0e7880fa3 https://www.encodeproject.org/files/ENCFF319HLW/@@download/ENCFF319HLW.bed.gz hg19 released file validation error, low read length, low read depth, antibody characterized with exemption mismatched file status ENCFF299ENM bed narrowPeak optimal idr thresholded peaks ENCSR669LCD ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ATF4-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF199FFU, ENCFF421NCI, ENCFF928MMD 108732 ENCODE Processing Pipeline 8a728f81094a659b30119c850638b1a0 https://www.encodeproject.org/files/ENCFF299ENM/@@download/ENCFF299ENM.bed.gz hg19 released low read depth, missing genetic modification characterization characterization(s) pending review ENCFF693ZGN bed narrowPeak optimal idr thresholded peaks ENCSR369YUK ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-FOXP1-human DNA False 2018-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF008BOV, ENCFF159DSQ, ENCFF660FMW 463802 ENCODE Processing Pipeline e0d02beb59896aa64b1a1d4afe6698b0 https://www.encodeproject.org/files/ENCFF693ZGN/@@download/ENCFF693ZGN.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review, experiment not submitted to GEO missing control alignments ENCFF209YKP bed narrowPeak optimal idr thresholded peaks ENCSR087NSR ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-KDM1A-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF461JRP, ENCFF622AQP, ENCFF995YHB 235451 ENCODE Processing Pipeline 66a6a14f2e13f421dfe24e2bd97c4fc2 https://www.encodeproject.org/files/ENCFF209YKP/@@download/ENCFF209YKP.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CNQ bed narrowPeak optimal idr thresholded peaks ENCSR000BLY ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour RAD21-human DNA see document see document False 2011-07-18 ENCODE 1253872 ENCODE Consortium Analysis Working Group 61137ce7d04dfac964b972832c1c0de4 https://www.encodeproject.org/files/ENCFF002CNQ/@@download/ENCFF002CNQ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF874PNQ bed narrowPeak optimal idr thresholded peaks ENCSR000BLY ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour RAD21-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF114SKT, ENCFF758GUY, ENCFF846NCI 1108510 ENCODE Processing Pipeline 6578f7d35c36ea6f9b39a78cd0131e2d https://www.encodeproject.org/files/ENCFF874PNQ/@@download/ENCFF874PNQ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF002CSO bed narrowPeak optimal idr thresholded peaks ENCSR000EDF ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens IRF3-human DNA see document see document False 2011-10-29 ENCODE 42861 ENCODE Consortium Analysis Working Group 61be13789db82a32b707fa71aa317854 https://www.encodeproject.org/files/ENCFF002CSO/@@download/ENCFF002CSO.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CPN bed narrowPeak optimal idr thresholded peaks ENCSR000DZP ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SMC3-human DNA see document see document False 2011-10-29 ENCODE 746137 ENCODE Consortium Analysis Working Group a2acdd468555c5743295f7d2f82fab6c https://www.encodeproject.org/files/ENCFF002CPN/@@download/ENCFF002CPN.bed.gz hg19 archived low read length, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF686FLD bed narrowPeak optimal idr thresholded peaks ENCSR000DZP ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SMC3-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF027ZKP, ENCFF246ZRW, ENCFF249QCH 573680 ENCODE Processing Pipeline bba9c26b2d0c073aaa60505f9cfdb10b https://www.encodeproject.org/files/ENCFF686FLD/@@download/ENCFF686FLD.bed.gz hg19 released low read length, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CIX bed narrowPeak optimal idr thresholded peaks ENCSR000BIW ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens GABPA-human DNA see document see document False 2011-07-18 ENCODE 113527 ENCODE Consortium Analysis Working Group 9b30d396b2ae6ddbbc58f47f039335b7 https://www.encodeproject.org/files/ENCFF002CIX/@@download/ENCFF002CIX.bed.gz hg19 archived low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF894MNP bed narrowPeak optimal idr thresholded peaks ENCSR000BIW ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens GABPA-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF027RYJ, ENCFF352YTI, ENCFF814FEG 169751 ENCODE Processing Pipeline 35b95ff5dd3e74989c0a226c380141bd https://www.encodeproject.org/files/ENCFF894MNP/@@download/ENCFF894MNP.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CHS bed narrowPeak optimal idr thresholded peaks ENCSR000BRI ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RUNX3-human DNA see document see document False 2012-02-29 ENCODE 1352322 ENCODE Consortium Analysis Working Group 302146bfd3784632e94fe3ef1dde166f https://www.encodeproject.org/files/ENCFF002CHS/@@download/ENCFF002CHS.bed.gz hg19 archived low read length, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF248QFF bed narrowPeak optimal idr thresholded peaks ENCSR000BRI ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RUNX3-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF308ISM, ENCFF670DLM, ENCFF689WPU 1213545 ENCODE Processing Pipeline f32fa41421aa72103e62f7a02ec79e44 https://www.encodeproject.org/files/ENCFF248QFF/@@download/ENCFF248QFF.bed.gz hg19 released low read length, inconsistent platforms biological replicates with identical biosample ENCFF002CQG bed narrowPeak optimal idr thresholded peaks ENCSR000EAU ChIP-seq EFO:0005332 GM18505 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 463379 ENCODE Consortium Analysis Working Group 3aa8d8c69bc7d5c0c1479ad2b8f0a4ed https://www.encodeproject.org/files/ENCFF002CQG/@@download/ENCFF002CQG.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF196DHR bed narrowPeak optimal idr thresholded peaks ENCSR926KTP ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-IRF9-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF437EBC, ENCFF672YBV, ENCFF878TRQ 178677 ENCODE Processing Pipeline d604bcfbecd8c71778b4f1843c67dfd9 https://www.encodeproject.org/files/ENCFF196DHR/@@download/ENCFF196DHR.bed.gz hg19 released missing genetic modification characterization ENCFF002CRZ bed narrowPeak optimal idr thresholded peaks ENCSR000EZC ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens SMARCA4-human DNA see document see document False 2011-10-29 ENCODE 30108 ENCODE Consortium Analysis Working Group 17b2602908fb2488bd9e2b046d59701e https://www.encodeproject.org/files/ENCFF002CRZ/@@download/ENCFF002CRZ.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CDS bed narrowPeak optimal idr thresholded peaks ENCSR000AMF ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1 ENCFF000AVI, ENCFF000AVK 1381027 ENCODE Consortium Analysis Working Group 5042afb91f822356fa7b9d16c6d94e94 https://www.encodeproject.org/files/ENCFF002CDS/@@download/ENCFF002CDS.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms ENCFF002CSR bed narrowPeak optimal idr thresholded peaks ENCSR000ECN ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MAX-human DNA see document see document False 2012-05-14 ENCODE 742112 ENCODE Consortium Analysis Working Group 4e2babbda793ba249e6f4ed5048b3462 https://www.encodeproject.org/files/ENCFF002CSR/@@download/ENCFF002CSR.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF265LKN bed narrowPeak optimal idr thresholded peaks ENCSR619GFP ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-HINFP-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF089QJI, ENCFF369YHE, ENCFF922IFQ 128527 ENCODE Processing Pipeline 38e7c9a347317a014c942a4fb187d1c6 https://www.encodeproject.org/files/ENCFF265LKN/@@download/ENCFF265LKN.bed.gz hg19 released control low read depth, mild to moderate bottlenecking, low read depth, missing genetic modification characterization ENCFF002CNR bed narrowPeak optimal idr thresholded peaks ENCSR000BMF ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour USF1-human DNA see document see document False 2011-07-18 ENCODE 381400 ENCODE Consortium Analysis Working Group 2b841aa96ef5710fd1b227e9c8ab262d https://www.encodeproject.org/files/ENCFF002CNR/@@download/ENCFF002CNR.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF588NYF bed narrowPeak optimal idr thresholded peaks ENCSR000BMF ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour USF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF110YHD, ENCFF481EBP, ENCFF872MXG 359763 ENCODE Processing Pipeline dd7204e1356625205a7ae66985c33cd6 https://www.encodeproject.org/files/ENCFF588NYF/@@download/ENCFF588NYF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CTD bed narrowPeak optimal idr thresholded peaks ENCSR000DNU ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens POLR3A-human DNA see document see document False 2011-10-29 ENCODE 70522 ENCODE Consortium Analysis Working Group 168146bed937ff725b3e1f9e98b70ed2 https://www.encodeproject.org/files/ENCFF002CTD/@@download/ENCFF002CTD.bed.gz hg19 released inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CNS bed narrowPeak optimal idr thresholded peaks ENCSR000BLZ ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour YY1-human DNA see document see document False 2011-07-18 ENCODE 382176 ENCODE Consortium Analysis Working Group 47f8ab33c05f0a60dc591d3254061600 https://www.encodeproject.org/files/ENCFF002CNS/@@download/ENCFF002CNS.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF958LUB bed narrowPeak optimal idr thresholded peaks ENCSR000BLZ ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour YY1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF008AIJ, ENCFF310NCC, ENCFF477NKZ 402582 ENCODE Processing Pipeline 3865699116468e4950ef588d5cb2ba3e https://www.encodeproject.org/files/ENCFF958LUB/@@download/ENCFF958LUB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002CKA bed narrowPeak optimal idr thresholded peaks ENCSR000BHT ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 346694 ENCODE Consortium Analysis Working Group d2923dff41466751318a0e525898a21d https://www.encodeproject.org/files/ENCFF002CKA/@@download/ENCFF002CKA.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF305QDB bed narrowPeak optimal idr thresholded peaks ENCSR000BHT ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF533OIU, ENCFF558HCQ, ENCFF570CST 312444 ENCODE Processing Pipeline 212dacefd25c5361bc1b2e5400f36d9c https://www.encodeproject.org/files/ENCFF305QDB/@@download/ENCFF305QDB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth ENCFF002CVV bed narrowPeak optimal idr thresholded peaks ENCSR000EHE ChIP-seq EFO:0002067 K562 cell line Homo sapiens CEBPB-human DNA see document see document False 2011-10-29 ENCODE 892426 ENCODE Consortium Analysis Working Group 04e3941e0e52a83b13096436c6491a25 https://www.encodeproject.org/files/ENCFF002CVV/@@download/ENCFF002CVV.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF429XKT bed narrowPeak optimal idr thresholded peaks ENCSR000EHE ChIP-seq EFO:0002067 K562 cell line Homo sapiens CEBPB-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF143EHM, ENCFF206BMO, ENCFF755NTM 766395 ENCODE Processing Pipeline 88c12b16ffd687378e1854b5f80644c8 https://www.encodeproject.org/files/ENCFF429XKT/@@download/ENCFF429XKT.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CWS bed narrowPeak optimal idr thresholded peaks ENCSR000EHC ChIP-seq EFO:0002067 K562 cell line Homo sapiens GTF2F1-human DNA see document see document False 2011-10-29 ENCODE 95959 ENCODE Consortium Analysis Working Group 3258cc485e176b5d51866301f5e00016 https://www.encodeproject.org/files/ENCFF002CWS/@@download/ENCFF002CWS.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF156WRH bed narrowPeak optimal idr thresholded peaks ENCSR000EHC ChIP-seq EFO:0002067 K562 cell line Homo sapiens GTF2F1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF123HUT, ENCFF220GLK, ENCFF614RPL 94699 ENCODE Processing Pipeline 3412d376260c85c185a7efc28f868928 https://www.encodeproject.org/files/ENCFF156WRH/@@download/ENCFF156WRH.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CVZ bed narrowPeak optimal idr thresholded peaks ENCSR000EZX ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour JUN-human DNA see document see document False 2011-10-29 ENCODE 127221 ENCODE Consortium Analysis Working Group 8086db1d6870a8c9418dacda7340d3a7 https://www.encodeproject.org/files/ENCFF002CVZ/@@download/ENCFF002CVZ.bed.gz hg19 archived control low read depth missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF573GQX bed narrowPeak optimal idr thresholded peaks ENCSR000EZX ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour JUN-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF041POZ, ENCFF605EZB, ENCFF829NXG 84349 ENCODE Processing Pipeline abed910a74ad73f3c1db21033f7275f3 https://www.encodeproject.org/files/ENCFF573GQX/@@download/ENCFF573GQX.bed.gz hg19 released control low read depth biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF859NPS bed narrowPeak optimal idr thresholded peaks ENCSR130PDE ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-NR4A1-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF090MIJ, ENCFF317YJY, ENCFF319MZU 384718 ENCODE Processing Pipeline 1fbe7c256ff4719ad463455c1b853fa6 https://www.encodeproject.org/files/ENCFF859NPS/@@download/ENCFF859NPS.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization ENCFF002CWZ bed narrowPeak optimal idr thresholded peaks ENCSR000EGN ChIP-seq EFO:0002067 K562 cell line Homo sapiens JUND-human DNA see document see document False 2011-10-29 ENCODE 788904 ENCODE Consortium Analysis Working Group fc92c89774100278488f9604f2b41d14 https://www.encodeproject.org/files/ENCFF002CWZ/@@download/ENCFF002CWZ.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF337DKJ bed narrowPeak optimal idr thresholded peaks ENCSR000EGN ChIP-seq EFO:0002067 K562 cell line Homo sapiens JUND-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF159IRT, ENCFF367HPL, ENCFF844LUC 761693 ENCODE Processing Pipeline 3a2d773ef2c1c39f7ac48b0924f2febe https://www.encodeproject.org/files/ENCFF337DKJ/@@download/ENCFF337DKJ.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CVP bed narrowPeak optimal idr thresholded peaks ENCSR000DOK ChIP-seq EFO:0002067 K562 cell line Homo sapiens BDP1-human DNA see document see document False 2011-10-29 ENCODE 14731 ENCODE Consortium Analysis Working Group b7736965c422593b231caef94ba62e82 https://www.encodeproject.org/files/ENCFF002CVP/@@download/ENCFF002CVP.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF116EXQ bed narrowPeak optimal idr thresholded peaks ENCSR331HPA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens GABPA-human DNA False 2014-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF304VXR, ENCFF379IZI, ENCFF636JXY 145088 ENCODE Processing Pipeline 54561d7676f209c4accf47a9d8d8dbda https://www.encodeproject.org/files/ENCFF116EXQ/@@download/ENCFF116EXQ.bed.gz hg19 released mild to moderate bottlenecking, low read depth, inconsistent platforms, antibody characterized with exemption biological replicates with identical biosample ENCFF002CQW bed narrowPeak optimal idr thresholded peaks ENCSR000EUO ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CTBP2-human DNA see document see document False 2011-10-29 ENCODE 135363 ENCODE Consortium Analysis Working Group e1e47f33b91591dd047e4f47a93d81f4 https://www.encodeproject.org/files/ENCFF002CQW/@@download/ENCFF002CQW.bed.gz hg19 archived low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF222TBM bed narrowPeak optimal idr thresholded peaks ENCSR000EUO ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CTBP2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF192EEU, ENCFF435TXP, ENCFF845TLB 149159 ENCODE Processing Pipeline 82e163feba058a7f390e9c54fddff002 https://www.encodeproject.org/files/ENCFF222TBM/@@download/ENCFF222TBM.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF030NYG bed narrowPeak optimal idr thresholded peaks ENCSR000BMI ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SRF-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF252ZSU, ENCFF256FUR, ENCFF694IUT 198820 ENCODE Processing Pipeline bc1bb5c6d32dc9c8b9ce28c46e4b77e4 https://www.encodeproject.org/files/ENCFF030NYG/@@download/ENCFF030NYG.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF558QCA bed narrowPeak optimal idr thresholded peaks ENCSR988LZG ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ARID4B-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF570CWS, ENCFF737SVI, ENCFF800ABS 901087 ENCODE Processing Pipeline cb473e1414569cc6cdff2335c5312986 https://www.encodeproject.org/files/ENCFF558QCA/@@download/ENCFF558QCA.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CIV bed narrowPeak optimal idr thresholded peaks ENCSR000BJA ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens EGR1-human DNA see document see document False 2011-07-18 ENCODE 199154 ENCODE Consortium Analysis Working Group 0f9d09e6548dc05ba820e0b32d65e5bd https://www.encodeproject.org/files/ENCFF002CIV/@@download/ENCFF002CIV.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth missing derived_from, biological replicates with identical biosample ENCFF220IXP bed narrowPeak optimal idr thresholded peaks ENCSR000BJA ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens EGR1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF235LAV, ENCFF283VJO, ENCFF375CPS 205136 ENCODE Processing Pipeline 3264aafab10c53352fc8b19ad9cc0ac5 https://www.encodeproject.org/files/ENCFF220IXP/@@download/ENCFF220IXP.bed.gz hg19 released low read length, borderline replicate concordance, low read depth biological replicates with identical biosample ENCFF617AHB bed narrowPeak optimal idr thresholded peaks ENCSR945NFL ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens USF2-human DNA False 2017-06-15 ENCODE 1, 2 ENCFF001TDO, ENCFF168LBA, ENCFF680TFE, ENCFF982EXB 17167 ENCODE Processing Pipeline 2c2a17a597bd629f495146a50ff1ed9b https://www.encodeproject.org/files/ENCFF617AHB/@@download/ENCFF617AHB.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, antibody characterized with exemption ENCFF002CVY bed narrowPeak optimal idr thresholded peaks ENCSR000EGH ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute JUN-human DNA see document see document False 2012-05-14 ENCODE 217184 ENCODE Consortium Analysis Working Group c226b910f32186397ea83661cc905568 https://www.encodeproject.org/files/ENCFF002CVY/@@download/ENCFF002CVY.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF077UYM bed narrowPeak optimal idr thresholded peaks ENCSR000EGH ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute JUN-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF063HEH, ENCFF257FNC, ENCFF767GKW 166535 ENCODE Processing Pipeline 1bfdc3d3c368a4f534014f7554f50dcd https://www.encodeproject.org/files/ENCFF077UYM/@@download/ENCFF077UYM.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF855HSK bed narrowPeak optimal idr thresholded peaks ENCSR000DKR ChIP-seq EFO:0005335 GM10266 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF327KKL, ENCFF787CXT, ENCFF950YTB 520860 ENCODE Processing Pipeline 88e4bb9295bf0a07c811034ba0e4ed00 https://www.encodeproject.org/files/ENCFF855HSK/@@download/ENCFF855HSK.bed.gz hg19 released mild to moderate bottlenecking, low read depth biological replicates with identical biosample control insufficient read depth missing control alignments ENCFF002CYH bed narrowPeak optimal idr thresholded peaks ENCSR000EHB ChIP-seq EFO:0002067 K562 cell line Homo sapiens TAL1-human DNA see document see document False 2011-10-29 ENCODE 631761 ENCODE Consortium Analysis Working Group e1679483ad761bef6924874a72a68d6e https://www.encodeproject.org/files/ENCFF002CYH/@@download/ENCFF002CYH.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF482CEV bed narrowPeak optimal idr thresholded peaks ENCSR000EHB ChIP-seq EFO:0002067 K562 cell line Homo sapiens TAL1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF028EAN, ENCFF056GMV, ENCFF567HZK 504630 ENCODE Processing Pipeline 64b1a7c24e3ca92449341ced85c8cbed https://www.encodeproject.org/files/ENCFF482CEV/@@download/ENCFF482CEV.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CNM bed narrowPeak optimal idr thresholded peaks ENCSR000BPB ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens SIN3A-human DNA see document see document False 2012-02-29 ENCODE 343551 ENCODE Consortium Analysis Working Group 70056d3abc410288536533fbc11985e0 https://www.encodeproject.org/files/ENCFF002CNM/@@download/ENCFF002CNM.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from severe bottlenecking ENCFF650GZO bed narrowPeak optimal idr thresholded peaks ENCSR000BPB ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens SIN3A-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF216MKT, ENCFF281QDR, ENCFF795KPL 346921 ENCODE Processing Pipeline de965e0f3921297c8f2d5541c4be4f57 https://www.encodeproject.org/files/ENCFF650GZO/@@download/ENCFF650GZO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample severe bottlenecking ENCFF002CSJ bed narrowPeak optimal idr thresholded peaks ENCSR000ECI ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens ELK1-human DNA see document see document False 2012-05-14 ENCODE 128199 ENCODE Consortium Analysis Working Group 68b83db449782d8ce122a93a2d7a85b9 https://www.encodeproject.org/files/ENCFF002CSJ/@@download/ENCFF002CSJ.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from, duplicate lane review ENCFF002CYZ bed narrowPeak optimal idr thresholded peaks ENCSR000DOS ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens ethanol 0.01 percent 36.0 hour MYC-human DNA see document see document False 2012-05-14 ENCODE 673835 ENCODE Consortium Analysis Working Group e507c5bba801a891bb1a2430b629aab3 https://www.encodeproject.org/files/ENCFF002CYZ/@@download/ENCFF002CYZ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization missing derived_from, biological replicates with identical biosample ENCFF772PCI bed narrowPeak optimal idr thresholded peaks ENCSR000DOS ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens ethanol 0.01 percent 36.0 hour MYC-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF190UWS, ENCFF485KEP, ENCFF660LCY 667279 ENCODE Processing Pipeline 480e952f21e9a364c2c650596739204d https://www.encodeproject.org/files/ENCFF772PCI/@@download/ENCFF772PCI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization biological replicates with identical biosample ENCFF002CSY bed narrowPeak optimal idr thresholded peaks ENCSR000EZL ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 453301 ENCODE Consortium Analysis Working Group ebdabfe25f69ac5107fc0aa03d1ecae4 https://www.encodeproject.org/files/ENCFF002CSY/@@download/ENCFF002CSY.bed.gz hg19 released inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read length ENCFF529FWJ bed narrowPeak optimal idr thresholded peaks ENCSR448UKK ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ZKSCAN8-human DNA False 2016-06-13 ENCODE 1, 2 ENCFF001TDO, ENCFF234TBD, ENCFF603LKQ, ENCFF839IXS 176626 ENCODE Processing Pipeline 7207f9b5dcf5b4248227451b79664f04 https://www.encodeproject.org/files/ENCFF529FWJ/@@download/ENCFF529FWJ.bed.gz hg19 released missing genetic modification characterization ENCFF002CRH bed narrowPeak optimal idr thresholded peaks ENCSR000ECB ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens TBP-human DNA see document see document False 2011-10-29 ENCODE 416950 ENCODE Consortium Analysis Working Group 332fae3b1be780d35e98ab5fa0783687 https://www.encodeproject.org/files/ENCFF002CRH/@@download/ENCFF002CRH.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF629MBV bed narrowPeak optimal idr thresholded peaks ENCSR000ECB ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens TBP-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF208DFV, ENCFF686GYI, ENCFF730GTB 395270 ENCODE Processing Pipeline 1461e05d9f74c404801d4b756e9f4c7e https://www.encodeproject.org/files/ENCFF629MBV/@@download/ENCFF629MBV.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CVL bed narrowPeak optimal idr thresholded peaks ENCSR000EFY ChIP-seq EFO:0002067 K562 cell line Homo sapiens ARID3A-human DNA see document see document False 2012-05-14 ENCODE 209743 ENCODE Consortium Analysis Working Group 506383a9730f9b5869c629ba78084b51 https://www.encodeproject.org/files/ENCFF002CVL/@@download/ENCFF002CVL.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF835KAT bed narrowPeak optimal idr thresholded peaks ENCSR000EFY ChIP-seq EFO:0002067 K562 cell line Homo sapiens ARID3A-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF378JGJ, ENCFF411VNI, ENCFF732QKX 203969 ENCODE Processing Pipeline 61a07b9ac21ac0103491a01c337814c1 https://www.encodeproject.org/files/ENCFF835KAT/@@download/ENCFF835KAT.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample insufficient read depth ENCFF002DDS bed narrowPeak optimal idr thresholded peaks ENCSR000DXW ChIP-seq EFO:0005715 WERI-Rb-1 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HXV, ENCFF001HXX 962837 ENCODE Consortium Analysis Working Group 33fb2c5fb01abb7070faf899450686be https://www.encodeproject.org/files/ENCFF002DDS/@@download/ENCFF002DDS.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms insufficient read depth ENCFF924OMX bed narrowPeak optimal idr thresholded peaks ENCSR000DXW ChIP-seq EFO:0005715 WERI-Rb-1 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF437VBU, ENCFF641GOK, ENCFF837XNW 890963 ENCODE Processing Pipeline 85e198d151d13048fd43f592ae2d1063 https://www.encodeproject.org/files/ENCFF924OMX/@@download/ENCFF924OMX.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms insufficient read depth ENCFF002CJQ bed narrowPeak optimal idr thresholded peaks ENCSR000BIT ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens TCF12-human DNA see document see document False 2011-07-18 ENCODE 151751 ENCODE Consortium Analysis Working Group b2ae3c4f14cd0925547fce472ce96e1b https://www.encodeproject.org/files/ENCFF002CJQ/@@download/ENCFF002CJQ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample insufficient read depth missing control alignments ENCFF274AQE bed narrowPeak optimal idr thresholded peaks ENCSR000BIT ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens TCF12-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF143RTQ, ENCFF447CBR, ENCFF500IOB 194337 ENCODE Processing Pipeline faca2edfad31759b309588367cc6d3bb https://www.encodeproject.org/files/ENCFF274AQE/@@download/ENCFF274AQE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth missing control alignments ENCFF332DRG bed narrowPeak optimal idr thresholded peaks ENCSR314BBS ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-PTTG1-human DNA False 2016-03-02 ENCODE 1, 2 ENCFF001TDO, ENCFF069PPO, ENCFF351JUL, ENCFF981LHO 86566 ENCODE Processing Pipeline 1e20dd325116baacb561791a59333622 https://www.encodeproject.org/files/ENCFF332DRG/@@download/ENCFF332DRG.bed.gz hg19 released mild to moderate bottlenecking, low read depth, missing genetic modification characterization ENCFF862VFJ bed narrowPeak optimal idr thresholded peaks ENCSR027HML ChIP-seq EFO:0006711 OCI-LY7 cell line Homo sapiens CTCF-human DNA see document see document False 2014-07-11 ENCODE 1, 2 ENCFF001TDO, ENCFF344EMX, ENCFF536OEM, ENCFF607FHS 1500244 ENCODE Processing Pipeline 3ea35f80ad188673c48542f634d09d79 https://www.encodeproject.org/files/ENCFF862VFJ/@@download/ENCFF862VFJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity, mixed read lengths, antibody characterized with exemption NTR biosample ENCFF002CSB bed narrowPeak optimal idr thresholded peaks ENCSR000EZE ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens FOS-human DNA see document see document False 2011-10-29 ENCODE 233892 ENCODE Consortium Analysis Working Group d1cdae9ffcf36c5c0bd31a65c7f33126 https://www.encodeproject.org/files/ENCFF002CSB/@@download/ENCFF002CSB.bed.gz hg19 released inconsistent platforms duplicate lane review, missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CQQ bed narrowPeak optimal idr thresholded peaks ENCSR000EBX ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens BRCA1-human DNA see document see document False 2012-05-14 ENCODE 53948 ENCODE Consortium Analysis Working Group 51011e40936b048440f5f97f0de44638 https://www.encodeproject.org/files/ENCFF002CQQ/@@download/ENCFF002CQQ.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF658OOS bed narrowPeak optimal idr thresholded peaks ENCSR000EBX ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens BRCA1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF312BLK, ENCFF354QYP, ENCFF607PGS 36525 ENCODE Processing Pipeline 84b058d22a0501bc42a348af3a655419 https://www.encodeproject.org/files/ENCFF658OOS/@@download/ENCFF658OOS.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF544XKC bed narrowPeak optimal idr thresholded peaks ENCSR115SMW ChIP-seq EFO:0002067 K562 cell line Homo sapiens PKNOX1-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF279KYF, ENCFF572VXK, ENCFF967UHQ 884225 ENCODE Processing Pipeline 1be1447808c5db1b66e6c0b3f3cf0782 https://www.encodeproject.org/files/ENCFF544XKC/@@download/ENCFF544XKC.bed.gz hg19 released ENCFF002DBP bed narrowPeak optimal idr thresholded peaks ENCSR000DMK ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens POLR2A-human DNA see document see document False 2012-08-27 ENCODE 455601 ENCODE Consortium Analysis Working Group c8bf0a0ef1a68236fb17c6dcfdcc9578 https://www.encodeproject.org/files/ENCFF002DBP/@@download/ENCFF002DBP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF002DCC bed narrowPeak optimal idr thresholded peaks ENCSR000DQI ChIP-seq EFO:0002779 BJ cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001GZL, ENCFF001GZP 877867 ENCODE Consortium Analysis Working Group bb97df8c169ee43a57c4f9c008ecac67 https://www.encodeproject.org/files/ENCFF002DCC/@@download/ENCFF002DCC.bed.gz hg19 archived moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth insufficient read depth ENCFF649IRT bed narrowPeak optimal idr thresholded peaks ENCSR000DQI ChIP-seq EFO:0002779 BJ cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF493VQC, ENCFF777VSN, ENCFF829XOU 747549 ENCODE Processing Pipeline cff73f0abc942e1a9b0fc2c314cef00e https://www.encodeproject.org/files/ENCFF649IRT/@@download/ENCFF649IRT.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth insufficient read depth ENCFF002CGT bed narrowPeak optimal idr thresholded peaks ENCSR000BJZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BCLAF1-human DNA see document see document False 2011-07-18 ENCODE 119918 ENCODE Consortium Analysis Working Group cd8131abfae3d224d17aeabf9e7dd1f9 https://www.encodeproject.org/files/ENCFF002CGT/@@download/ENCFF002CGT.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF563QBC bed narrowPeak optimal idr thresholded peaks ENCSR000BJZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BCLAF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF590VTP, ENCFF591DYQ, ENCFF596IAY 384864 ENCODE Processing Pipeline dbc8a781e1fbe9d3923a0952f41aab3f https://www.encodeproject.org/files/ENCFF563QBC/@@download/ENCFF563QBC.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF586TYX bed narrowPeak optimal idr thresholded peaks ENCSR261VAS ChIP-seq CL:0000192 smooth muscle cell in vitro differentiated cells Homo sapiens CTCF-human DNA False 2017-12-03 ENCODE 1, 2 ENCFF001TDO, ENCFF339XVK, ENCFF343NOG, ENCFF456RUF 675274 ENCODE Processing Pipeline 2ac43f62ae79b7d5f01a73fcd51ae244 https://www.encodeproject.org/files/ENCFF586TYX/@@download/ENCFF586TYX.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption NTR biosample, experiment not submitted to GEO insufficient read depth, poor library complexity, severe bottlenecking ENCFF002CVO bed narrowPeak optimal idr thresholded peaks ENCSR000EGD ChIP-seq EFO:0002067 K562 cell line Homo sapiens BACH1-human DNA see document see document False 2012-05-14 ENCODE 101541 ENCODE Consortium Analysis Working Group ffaad9c424d927abf310d20c1269cd5a https://www.encodeproject.org/files/ENCFF002CVO/@@download/ENCFF002CVO.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF423EMU bed narrowPeak optimal idr thresholded peaks ENCSR000EGD ChIP-seq EFO:0002067 K562 cell line Homo sapiens BACH1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF091TOR, ENCFF107CCL, ENCFF276CQA 88613 ENCODE Processing Pipeline 4a5e60199fc2e91ed05449790c0ead65 https://www.encodeproject.org/files/ENCFF423EMU/@@download/ENCFF423EMU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF768BPC bed narrowPeak optimal idr thresholded peaks ENCSR418RRF ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens KDM1A-human DNA False 2016-12-06 ENCODE 1, 2 ENCFF001TDO, ENCFF039BYF, ENCFF082PNM, ENCFF712NLB 348369 ENCODE Processing Pipeline d359d1a080e0eb9236168fd93e3a2dff https://www.encodeproject.org/files/ENCFF768BPC/@@download/ENCFF768BPC.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance ENCFF002CQS bed narrowPeak optimal idr thresholded peaks ENCSR000EBU ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CHD1-human DNA see document see document False 2012-05-14 ENCODE 59003 ENCODE Consortium Analysis Working Group ec39af486e81438e1a000f6734ea6ac4 https://www.encodeproject.org/files/ENCFF002CQS/@@download/ENCFF002CQS.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF607EOG bed narrowPeak optimal idr thresholded peaks ENCSR000EBU ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CHD1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF230JPS, ENCFF596NPF, ENCFF653VPD 39955 ENCODE Processing Pipeline ec82db6be939dc42c78bf6547264fba9 https://www.encodeproject.org/files/ENCFF607EOG/@@download/ENCFF607EOG.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF407AOX bed narrowPeak optimal idr thresholded peaks ENCSR322CFO ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZEB2-human DNA False 2016-06-14 ENCODE 1, 2 ENCFF001TDO, ENCFF295KFV, ENCFF597MUA, ENCFF846MNB 415569 ENCODE Processing Pipeline 66b1a2d68c92fbeb25faa3e5e7de339a https://www.encodeproject.org/files/ENCFF407AOX/@@download/ENCFF407AOX.bed.gz hg19 released ENCFF002COF bed narrowPeak optimal idr thresholded peaks ENCSR000DYF ChIP-seq EFO:0001086 A549 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF000VQE, ENCFF000VQF 90261 ENCODE Consortium Analysis Working Group a21ecc3c8c7e1b9d29b741c7c12bb662 https://www.encodeproject.org/files/ENCFF002COF/@@download/ENCFF002COF.bed.gz hg19 archived low read length, inconsistent platforms, inconsistent target of control experiment biological replicates with identical biosample ENCFF290ROR bed narrowPeak optimal idr thresholded peaks ENCSR000DYF ChIP-seq EFO:0001086 A549 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF047LZG, ENCFF168YSB, ENCFF900EDP 124435 ENCODE Processing Pipeline 111bc8dd528f8e8586528f8915e58ec7 https://www.encodeproject.org/files/ENCFF290ROR/@@download/ENCFF290ROR.bed.gz hg19 released low read length, inconsistent platforms, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DCA bed narrowPeak optimal idr thresholded peaks ENCSR000DPY ChIP-seq CL:0002547 fibroblast of the aortic adventitia primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001GYI, ENCFF001GYJ 922298 ENCODE Consortium Analysis Working Group 8098d23f2c7e0a7254a2d573249f4dbd https://www.encodeproject.org/files/ENCFF002DCA/@@download/ENCFF002DCA.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms insufficient read depth ENCFF859PRV bed narrowPeak optimal idr thresholded peaks ENCSR000DPY ChIP-seq CL:0002547 fibroblast of the aortic adventitia primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF005RNW, ENCFF241LIY, ENCFF567GAL 779989 ENCODE Processing Pipeline 43616394b9f92fa49f35482cff6b7155 https://www.encodeproject.org/files/ENCFF859PRV/@@download/ENCFF859PRV.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms insufficient read depth ENCFF002CQC bed narrowPeak optimal idr thresholded peaks ENCSR000EAM ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 494599 ENCODE Consortium Analysis Working Group a6e63251020b5a5036e549563125682f https://www.encodeproject.org/files/ENCFF002CQC/@@download/ENCFF002CQC.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CIS bed narrowPeak optimal idr thresholded peaks ENCSR000BKC ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens ATF3-human DNA see document see document False 2011-07-18 ENCODE 127804 ENCODE Consortium Analysis Working Group ab173430c407cd66ebbf7626586208a7 https://www.encodeproject.org/files/ENCFF002CIS/@@download/ENCFF002CIS.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF305HBV bed narrowPeak optimal idr thresholded peaks ENCSR000BKC ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens ATF3-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF067KOU, ENCFF450PVT, ENCFF616DKI 92829 ENCODE Processing Pipeline 742a86a42182a571b8d1fb3cf02d9b7b https://www.encodeproject.org/files/ENCFF305HBV/@@download/ENCFF305HBV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth ENCFF002CXQ bed narrowPeak optimal idr thresholded peaks ENCSR000EHL ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 201419 ENCODE Consortium Analysis Working Group 084ad0406460e0147c0920c7d6ee0855 https://www.encodeproject.org/files/ENCFF002CXQ/@@download/ENCFF002CXQ.bed.gz hg19 archived inconsistent target of control experiment missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF394LOQ bed narrowPeak optimal idr thresholded peaks ENCSR000EHL ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF311JHD, ENCFF538LJI, ENCFF548UHR 233885 ENCODE Processing Pipeline f68323c451656aa98cda4989cef2e027 https://www.encodeproject.org/files/ENCFF394LOQ/@@download/ENCFF394LOQ.bed.gz hg19 released inconsistent target of control experiment biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF851XSC bed narrowPeak optimal idr thresholded peaks ENCSR000EFF ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens MAZ-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF574TBH, ENCFF958APN, ENCFF978ATS 509179 ENCODE Processing Pipeline c30f2d65f9f1570a7e3ee65baba3006e https://www.encodeproject.org/files/ENCFF851XSC/@@download/ENCFF851XSC.bed.gz hg19 released borderline replicate concordance, moderate library complexity, inconsistent target of control experiment, low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002CPP bed narrowPeak optimal idr thresholded peaks ENCSR000DZV ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens STAT3-human DNA see document see document False 2011-10-29 ENCODE 171002 ENCODE Consortium Analysis Working Group 06b4dbcce351dd97c60552789fac7e28 https://www.encodeproject.org/files/ENCFF002CPP/@@download/ENCFF002CPP.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF014RBU bed narrowPeak optimal idr thresholded peaks ENCSR000DZV ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens STAT3-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF211SUY, ENCFF234PNC, ENCFF318RHH 135992 ENCODE Processing Pipeline 22bf3b30438a5ab0a401f82cf845218f https://www.encodeproject.org/files/ENCFF014RBU/@@download/ENCFF014RBU.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CTL bed narrowPeak optimal idr thresholded peaks ENCSR000DNY ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens GTF3C2-human DNA see document see document False 2011-10-29 ENCODE 71082 ENCODE Consortium Analysis Working Group 8f967bb3703e5256f6d32991a7f16ad4 https://www.encodeproject.org/files/ENCFF002CTL/@@download/ENCFF002CTL.bed.gz hg19 released inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CVN bed narrowPeak optimal idr thresholded peaks ENCSR000DOG ChIP-seq EFO:0002067 K562 cell line Homo sapiens ATF3-human DNA see document see document False 2011-10-29 ENCODE 30756 ENCODE Consortium Analysis Working Group f96359d316397bebb076f46153d104bf https://www.encodeproject.org/files/ENCFF002CVN/@@download/ENCFF002CVN.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CKW bed narrowPeak optimal idr thresholded peaks ENCSR000BPI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 409235 ENCODE Consortium Analysis Working Group c6dd4a82ab33a51514512734bb367425 https://www.encodeproject.org/files/ENCFF002CKW/@@download/ENCFF002CKW.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF061EOS bed narrowPeak optimal idr thresholded peaks ENCSR000BPI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF198UGH, ENCFF261HIN, ENCFF764SZC 502534 ENCODE Processing Pipeline 27a1ee77f9d3729b9065eb836173ef26 https://www.encodeproject.org/files/ENCFF061EOS/@@download/ENCFF061EOS.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF002CEH bed narrowPeak optimal idr thresholded peaks ENCSR000ALA ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 766613 ENCODE Consortium Analysis Working Group 79618d0c39b6e86ab98478f10c438082 https://www.encodeproject.org/files/ENCFF002CEH/@@download/ENCFF002CEH.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity missing derived_from insufficient read depth ENCFF002DCL bed narrowPeak optimal idr thresholded peaks ENCSR000DRU ChIP-seq EFO:0001162 GM12875 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HGZ, ENCFF001HHA 842741 ENCODE Consortium Analysis Working Group 07bb4f85501f023a001441bc56e9184d https://www.encodeproject.org/files/ENCFF002DCL/@@download/ENCFF002DCL.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth ENCFF733YSO bed narrowPeak optimal idr thresholded peaks ENCSR000DRU ChIP-seq EFO:0001162 GM12875 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF046FAZ, ENCFF737TLI, ENCFF852LHB 648391 ENCODE Processing Pipeline d2404a9f8ac0a0b865ac97ec3f6460e4 https://www.encodeproject.org/files/ENCFF733YSO/@@download/ENCFF733YSO.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth ENCFF002CHH bed narrowPeak optimal idr thresholded peaks ENCSR000BQS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens REST-human DNA see document see document False 2012-02-29 ENCODE 143093 ENCODE Consortium Analysis Working Group 044de7bd595573dff64ec47830e92bf3 https://www.encodeproject.org/files/ENCFF002CHH/@@download/ENCFF002CHH.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF677KJB bed narrowPeak optimal idr thresholded peaks ENCSR000BQS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens REST-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF294FPR, ENCFF793WOV, ENCFF974PTU 109221 ENCODE Processing Pipeline 0c909169189fe56ee39c28dcf7ff48fa https://www.encodeproject.org/files/ENCFF677KJB/@@download/ENCFF677KJB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth ENCFF002CWU bed narrowPeak optimal idr thresholded peaks ENCSR000EHN ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMARCB1-human DNA see document see document False 2011-10-29 ENCODE 38158 ENCODE Consortium Analysis Working Group e6499640822783d31c0238b31687b4fa https://www.encodeproject.org/files/ENCFF002CWU/@@download/ENCFF002CWU.bed.gz hg19 archived borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from insufficient read length ENCFF944GJH bed narrowPeak optimal idr thresholded peaks ENCSR000EHN ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMARCB1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF318HRX, ENCFF573QSE, ENCFF790RYU 58560 ENCODE Processing Pipeline b3ff6578520e0ba6f5791c57d2409267 https://www.encodeproject.org/files/ENCFF944GJH/@@download/ENCFF944GJH.bed.gz hg19 released borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample insufficient read length ENCFF002CQO bed narrowPeak optimal idr thresholded peaks ENCSR000EBK ChIP-seq EFO:0005351 GM19193 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 442401 ENCODE Consortium Analysis Working Group 87a3e84716a5e7e42409341883808bda https://www.encodeproject.org/files/ENCFF002CQO/@@download/ENCFF002CQO.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002DDJ bed narrowPeak optimal idr thresholded peaks ENCSR000DWE ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HTC, ENCFF001HTD 869756 ENCODE Consortium Analysis Working Group 8e9f23cdfc27292f8fc0f0b302cd296a https://www.encodeproject.org/files/ENCFF002DDJ/@@download/ENCFF002DDJ.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms insufficient read depth, poor library complexity, severe bottlenecking ENCFF002COT bed narrowPeak optimal idr thresholded peaks ENCSR000DZB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ELK1-human DNA see document see document False 2012-05-14 ENCODE 149104 ENCODE Consortium Analysis Working Group 6aa06ce60d16b95212716e13ef16917d https://www.encodeproject.org/files/ENCFF002COT/@@download/ENCFF002COT.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment duplicate lane review, missing derived_from, biological replicates with identical biosample ENCFF556JBS bed narrowPeak optimal idr thresholded peaks ENCSR000DZB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ELK1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF304FFB, ENCFF457WBU, ENCFF839VSW 137008 ENCODE Processing Pipeline 8a3f9f934ad6fb0dc377fb2d047121b3 https://www.encodeproject.org/files/ENCFF556JBS/@@download/ENCFF556JBS.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment duplicate lane review, biological replicates with identical biosample ENCFF002CKK bed narrowPeak optimal idr thresholded peaks ENCSR000BNI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXA2-human DNA see document see document False 2011-07-18 ENCODE 809761 ENCODE Consortium Analysis Working Group 5840d498651082c22423bec2c0e12365 https://www.encodeproject.org/files/ENCFF002CKK/@@download/ENCFF002CKK.bed.gz hg19 archived low read length, mild to moderate bottlenecking biological replicates with identical biosample, missing derived_from insufficient read depth, poor library complexity, insufficient replicate concordance, severe bottlenecking ENCFF002ROJ bed narrowPeak optimal idr thresholded peaks ENCSR000BNI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXA2-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF767MET, ENCFF782XTI, ENCFF850ZXW 823038 ENCODE Processing Pipeline 5e3ca1038ebee9259751b5b2bc902c3a https://www.encodeproject.org/files/ENCFF002ROJ/@@download/ENCFF002ROJ.bed.gz hg19 released low read length, mild to moderate bottlenecking biological replicates with identical biosample insufficient read depth, poor library complexity, insufficient replicate concordance, severe bottlenecking ENCFF030PNS bed narrowPeak optimal idr thresholded peaks ENCSR067HGI ChIP-seq EFO:0001086 A549 cell line Homo sapiens CHD2-human DNA False 2014-07-07 ENCODE 1, 3 ENCFF001TDO, ENCFF288VSN, ENCFF645PAM, ENCFF804YIE 60448 ENCODE Processing Pipeline 28f0734f811421bbe2a53db41f8ff034 https://www.encodeproject.org/files/ENCFF030PNS/@@download/ENCFF030PNS.bed.gz hg19 released low read length experiment not submitted to GEO partially characterized antibody ENCFF002COM bed narrowPeak optimal idr thresholded peaks ENCSR000EYZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens FOS-human DNA see document see document False 2011-10-29 ENCODE 55234 ENCODE Consortium Analysis Working Group f1d429a4e067d67537009d22f43162c8 https://www.encodeproject.org/files/ENCFF002COM/@@download/ENCFF002COM.bed.gz hg19 released duplicate lane review, biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CMR bed narrowPeak optimal idr thresholded peaks ENCSR000BKS ChIP-seq EFO:0002067 K562 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 312494 ENCODE Consortium Analysis Working Group c9a0dad556d6b26898d8aea60ac58f32 https://www.encodeproject.org/files/ENCFF002CMR/@@download/ENCFF002CMR.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity missing derived_from, biological replicates with identical biosample control insufficient read depth, insufficient read depth, severe bottlenecking extremely low read depth, missing control alignments ENCFF822FWM bed narrowPeak optimal idr thresholded peaks ENCSR000BKS ChIP-seq EFO:0002067 K562 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF697OMD, ENCFF713KSL, ENCFF847XRL 317644 ENCODE Processing Pipeline e0213c493c391ae380358cfc2d5a8490 https://www.encodeproject.org/files/ENCFF822FWM/@@download/ENCFF822FWM.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample control insufficient read depth, insufficient read depth, severe bottlenecking extremely low read depth, missing control alignments ENCFF002CDW bed narrowPeak optimal idr thresholded peaks ENCSR000AOA ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1041888 ENCODE Consortium Analysis Working Group b72dd7d21c8e29fbd69c073cfded6de8 https://www.encodeproject.org/files/ENCFF002CDW/@@download/ENCFF002CDW.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from ENCFF768OPK bed narrowPeak optimal idr thresholded peaks ENCSR000AOA ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF474KGT, ENCFF652AZC, ENCFF915PWP 770935 ENCODE Processing Pipeline 37dbe73e85937bacc0dd37a6cd7e6353 https://www.encodeproject.org/files/ENCFF768OPK/@@download/ENCFF768OPK.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity ENCFF002CPE bed narrowPeak optimal idr thresholded peaks ENCSR000DZD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EP300-human DNA False 2012-05-14 ENCODE 442586 ENCODE Consortium Analysis Working Group d418a64ce8855426c0c7e266c4950479 https://www.encodeproject.org/files/ENCFF002CPE/@@download/ENCFF002CPE.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent platforms, inconsistent target of control experiment missing derived_from ENCFF222XPQ bed narrowPeak optimal idr thresholded peaks ENCSR000DZD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EP300-human DNA False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF270RLY, ENCFF429WXC, ENCFF446MPR 352738 ENCODE Processing Pipeline d8641f789549a9b495f93565e6cf3260 https://www.encodeproject.org/files/ENCFF222XPQ/@@download/ENCFF222XPQ.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent platforms, inconsistent target of control experiment ENCFF002COR bed narrowPeak optimal idr thresholded peaks ENCSR000DYY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens E2F4-human DNA see document see document False 2012-05-14 ENCODE 91273 ENCODE Consortium Analysis Working Group 6c7a8a4cdae4db29921014968fe79a1f https://www.encodeproject.org/files/ENCFF002COR/@@download/ENCFF002COR.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF433PFN bed narrowPeak optimal idr thresholded peaks ENCSR000DYY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens E2F4-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF128GGA, ENCFF191NQS, ENCFF319MWF 85609 ENCODE Processing Pipeline 62c04d74d3bb8393fd21d79f6d87f4c0 https://www.encodeproject.org/files/ENCFF433PFN/@@download/ENCFF433PFN.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CIC bed narrowPeak optimal idr thresholded peaks ENCSR000BNP ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 613066 ENCODE Consortium Analysis Working Group 0eccf0b1b1a664b0b0dcef0493189e47 https://www.encodeproject.org/files/ENCFF002CIC/@@download/ENCFF002CIC.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample ENCFF967ACD bed narrowPeak optimal idr thresholded peaks ENCSR000BNP ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF138XMK, ENCFF794ILD, ENCFF864PVD 602532 ENCODE Processing Pipeline a52540d0d7e72164a332058a082387ee https://www.encodeproject.org/files/ENCFF967ACD/@@download/ENCFF967ACD.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002DDA bed narrowPeak optimal idr thresholded peaks ENCSR000DUP ChIP-seq EFO:0002793 HL-60 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1 ENCFF001HOV 375499 ENCODE Consortium Analysis Working Group 2bc274678f574d811003c25e47864252 https://www.encodeproject.org/files/ENCFF002DDA/@@download/ENCFF002DDA.bed.gz hg19 released control low read depth, low read length, inconsistent platforms insufficient read depth ENCFF002DCW bed narrowPeak optimal idr thresholded peaks ENCSR000DUB ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HMW, ENCFF001HNA 741203 ENCODE Consortium Analysis Working Group 616e2c2dddba644e8583216930f04db4 https://www.encodeproject.org/files/ENCFF002DCW/@@download/ENCFF002DCW.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth extremely low read depth, missing control alignments ENCFF830KSV bed narrowPeak optimal idr thresholded peaks ENCSR000DUB ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF155SMN, ENCFF242KOJ, ENCFF263ZIY 629516 ENCODE Processing Pipeline e3851124fbda85eda9007e79e17f7d74 https://www.encodeproject.org/files/ENCFF830KSV/@@download/ENCFF830KSV.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth extremely low read depth, missing control alignments ENCFF002CKG bed narrowPeak optimal idr thresholded peaks ENCSR000BMZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ELF1-human DNA see document see document False 2011-07-18 ENCODE 454270 ENCODE Consortium Analysis Working Group 9a253e2d8586d1180b2c4629c75a7d23 https://www.encodeproject.org/files/ENCFF002CKG/@@download/ENCFF002CKG.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF747CHL bed narrowPeak optimal idr thresholded peaks ENCSR000BMZ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ELF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF058SVD, ENCFF648CTU, ENCFF875YOA 363757 ENCODE Processing Pipeline 6cf30a6eafb808ec9250617a5b968d49 https://www.encodeproject.org/files/ENCFF747CHL/@@download/ENCFF747CHL.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF002CWF bed narrowPeak optimal idr thresholded peaks ENCSR000EGS ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute MYC-human DNA see document see document False 2011-10-29 ENCODE 680076 ENCODE Consortium Analysis Working Group 97fdb036134d390f6ab03921b34aaffe https://www.encodeproject.org/files/ENCFF002CWF/@@download/ENCFF002CWF.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth missing derived_from, biological replicates with identical biosample control insufficient read depth ENCFF676YJE bed narrowPeak optimal idr thresholded peaks ENCSR000EGS ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute MYC-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF199SKV, ENCFF357NBU, ENCFF859MQB 636144 ENCODE Processing Pipeline ffdaabb82feb7296592767b1c23b26fa https://www.encodeproject.org/files/ENCFF676YJE/@@download/ENCFF676YJE.bed.gz hg19 released low read length, borderline replicate concordance, low read depth biological replicates with identical biosample control insufficient read depth ENCFF002CMJ bed narrowPeak optimal idr thresholded peaks ENCSR000BGW ChIP-seq EFO:0002067 K562 cell line Homo sapiens SPI1-human DNA see document see document False 2011-07-18 ENCODE 551112 ENCODE Consortium Analysis Working Group e5deb59ab10ad4f9cf73e327a1094fd3 https://www.encodeproject.org/files/ENCFF002CMJ/@@download/ENCFF002CMJ.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from ENCFF002DCG bed narrowPeak optimal idr thresholded peaks ENCSR000DRB ChIP-seq EFO:0005337 GM12864 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2, 3 ENCFF001HBJ, ENCFF001HBQ, ENCFF001HBS 953786 ENCODE Consortium Analysis Working Group 5540da952ea93db87192bf07e709c9bd https://www.encodeproject.org/files/ENCFF002DCG/@@download/ENCFF002DCG.bed.gz hg19 archived moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing raw data in replicate insufficient read depth missing control alignments ENCFF671RVI bed narrowPeak optimal idr thresholded peaks ENCSR000DRB ChIP-seq EFO:0005337 GM12864 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 3 ENCFF001TDO, ENCFF267DUF, ENCFF672SJH, ENCFF858HDY 739999 ENCODE Processing Pipeline aaf3b50473d1552c9b4cf0b4678f1564 https://www.encodeproject.org/files/ENCFF671RVI/@@download/ENCFF671RVI.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing raw data in replicate insufficient read depth missing control alignments ENCFF622GQO bed narrowPeak optimal idr thresholded peaks ENCSR000DKZ ChIP-seq EFO:0005345 GM13976 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF555GZI, ENCFF690YKI, ENCFF756RGK 519232 ENCODE Processing Pipeline 06def2b40abe0c2c60f7a804865ba3f7 https://www.encodeproject.org/files/ENCFF622GQO/@@download/ENCFF622GQO.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance biological replicates with identical biosample insufficient read depth control extremely low read depth, missing control alignments ENCFF002CPF bed narrowPeak optimal idr thresholded peaks ENCSR000DZG ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EP300-human DNA see document see document False 2011-10-29 ENCODE 152762 ENCODE Consortium Analysis Working Group 9cc0e437af92a42a1da3184eaddbcf0a https://www.encodeproject.org/files/ENCFF002CPF/@@download/ENCFF002CPF.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth biological replicates with identical biosample, missing derived_from control insufficient read depth, insufficient replicate concordance ENCFF462GHD bed narrowPeak optimal idr thresholded peaks ENCSR000DZG ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EP300-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF632WHJ, ENCFF832BPN, ENCFF981IPY 297848 ENCODE Processing Pipeline d24dbbf4eb07c49cf63b19d7a03b606a https://www.encodeproject.org/files/ENCFF462GHD/@@download/ENCFF462GHD.bed.gz hg19 released low read length, borderline replicate concordance, low read depth biological replicates with identical biosample control insufficient read depth, insufficient replicate concordance ENCFF002DDU bed narrowPeak optimal idr thresholded peaks ENCSR000EHF ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2011-10-29 ENCODE 44670 ENCODE Consortium Analysis Working Group b080f173f628f221e5b9d573a1a10fe3 https://www.encodeproject.org/files/ENCFF002DDU/@@download/ENCFF002DDU.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF122QSN bed narrowPeak optimal idr thresholded peaks ENCSR112RNT ChIP-seq EFO:0002067 K562 cell line Homo sapiens HNRNPLL-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF343RFS, ENCFF433KJT, ENCFF657LPF 273665 ENCODE Processing Pipeline 45e71ff27266791196cebd444eafddf2 https://www.encodeproject.org/files/ENCFF122QSN/@@download/ENCFF122QSN.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF002CTW bed narrowPeak optimal idr thresholded peaks ENCSR000EEE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CEBPB-human DNA see document see document False 2011-10-29 ENCODE 1359017 ENCODE Consortium Analysis Working Group 92ef073fbaf203c55bf9a8420c1d47e8 https://www.encodeproject.org/files/ENCFF002CTW/@@download/ENCFF002CTW.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF319IEF bed narrowPeak optimal idr thresholded peaks ENCSR000EEE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CEBPB-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF359DUK, ENCFF578MYY, ENCFF684XQE 898132 ENCODE Processing Pipeline 27ed624082593d867ab0b13fc13c0765 https://www.encodeproject.org/files/ENCFF319IEF/@@download/ENCFF319IEF.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CUN bed narrowPeak optimal idr thresholded peaks ENCSR000EDV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens EP300-human DNA see document see document False 2011-10-29 ENCODE 175455 ENCODE Consortium Analysis Working Group 4dd80c054af7af291d3222c76720131e https://www.encodeproject.org/files/ENCFF002CUN/@@download/ENCFF002CUN.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF259JWD bed narrowPeak optimal idr thresholded peaks ENCSR000EDV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens EP300-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF119LSM, ENCFF416FNH, ENCFF508ZEB 160207 ENCODE Processing Pipeline bb6fc9f0d80179bf7b4c03b16f98fb21 https://www.encodeproject.org/files/ENCFF259JWD/@@download/ENCFF259JWD.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CUD bed narrowPeak optimal idr thresholded peaks ENCSR000EET ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens forskolin and pyruvate 6.0 hour HSF1-human DNA see document see document False 2011-10-29 ENCODE 33058 ENCODE Consortium Analysis Working Group ac168e3835bf300e78e7f95c92016980 https://www.encodeproject.org/files/ENCFF002CUD/@@download/ENCFF002CUD.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF663YBI bed narrowPeak optimal idr thresholded peaks ENCSR784FYS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RBFOX2-human DNA SDS formaldehyde False 2017-02-27 ENCODE 1, 2 ENCFF001TDO, ENCFF176EEQ, ENCFF543ACC, ENCFF743KRF 884540 ENCODE Processing Pipeline 287cfe54371940bfc646bdb49a71483e https://www.encodeproject.org/files/ENCFF663YBI/@@download/ENCFF663YBI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF002CNU bed narrowPeak optimal idr thresholded peaks ENCSR000BQD ChIP-seq EFO:0001247 T47D cell line Homo sapiens bisphenol A 100.0 nM 30.0 minute ESR1-human DNA see document see document False 2012-02-29 ENCODE 106459 ENCODE Consortium Analysis Working Group a86dcd18070158bf29fd91d8da95f8dc https://www.encodeproject.org/files/ENCFF002CNU/@@download/ENCFF002CNU.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF475MKH bed narrowPeak optimal idr thresholded peaks ENCSR000BQD ChIP-seq EFO:0001247 T47D cell line Homo sapiens bisphenol A 100.0 nM 30.0 minute ESR1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF355REI, ENCFF467HMZ, ENCFF716CEW 78926 ENCODE Processing Pipeline 56c17819f25811479adb57587a078f5e https://www.encodeproject.org/files/ENCFF475MKH/@@download/ENCFF475MKH.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF331WKY bed narrowPeak optimal idr thresholded peaks ENCSR233FAG ChIP-seq EFO:0001184 HEK293T cell line Homo sapiens PKNOX1-human DNA False 2016-11-17 ENCODE 1, 2 ENCFF001TDO, ENCFF025FXN, ENCFF667IBC, ENCFF914KNX 838373 ENCODE Processing Pipeline d70bc76d79b6ddbf1d6f1726763db070 https://www.encodeproject.org/files/ENCFF331WKY/@@download/ENCFF331WKY.bed.gz hg19 released ENCFF002COY bed narrowPeak optimal idr thresholded peaks ENCSR000DZI ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MXI1-human DNA False 2011-10-29 ENCODE 455182 ENCODE Consortium Analysis Working Group 95b92577da32551f9fd9cf9815f0c2db https://www.encodeproject.org/files/ENCFF002COY/@@download/ENCFF002COY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, inconsistent target of control experiment missing derived_from ENCFF079ZWK bed narrowPeak optimal idr thresholded peaks ENCSR000DZI ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MXI1-human DNA False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF603MKX, ENCFF711VHK, ENCFF776GTW 418493 ENCODE Processing Pipeline 6cacbee975f59501030c8b8587227808 https://www.encodeproject.org/files/ENCFF079ZWK/@@download/ENCFF079ZWK.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, inconsistent target of control experiment ENCFF002CHG bed narrowPeak optimal idr thresholded peaks ENCSR000BRN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFIC-human DNA see document see document False 2012-02-29 ENCODE 608424 ENCODE Consortium Analysis Working Group b8df4bad5bad9f8745dfe10c49735213 https://www.encodeproject.org/files/ENCFF002CHG/@@download/ENCFF002CHG.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF628QJU bed narrowPeak optimal idr thresholded peaks ENCSR000BRN ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFIC-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF019FNI, ENCFF729EFK, ENCFF806NEN 640810 ENCODE Processing Pipeline dc9ce027a41e9f4547f9aa222c71c62c https://www.encodeproject.org/files/ENCFF628QJU/@@download/ENCFF628QJU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity biological replicates with identical biosample ENCFF002CYG bed narrowPeak optimal idr thresholded peaks ENCSR000FBC ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour STAT2-human DNA see document see document False 2011-10-29 ENCODE 52027 ENCODE Consortium Analysis Working Group 536662a0526af993e9407b8b17b37312 https://www.encodeproject.org/files/ENCFF002CYG/@@download/ENCFF002CYG.bed.gz hg19 archived control low read depth missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length extremely low read depth ENCFF841YFF bed narrowPeak optimal idr thresholded peaks ENCSR000FBC ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour STAT2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF127UZX, ENCFF599VMK, ENCFF697GQV 37252 ENCODE Processing Pipeline fbccfe352a1f49d06bfa09b7f2ff0116 https://www.encodeproject.org/files/ENCFF841YFF/@@download/ENCFF841YFF.bed.gz hg19 released control low read depth biological replicates with identical biosample insufficient read depth, insufficient read length extremely low read depth ENCFF639TOU bed narrowPeak optimal idr thresholded peaks ENCSR555ZMV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens AGO1-human DNA SDS formaldehyde False 2017-12-01 ENCODE 1, 2 ENCFF001TDO, ENCFF272GTS, ENCFF386BWC, ENCFF661JJB 247580 ENCODE Processing Pipeline d830ce83f9d99a0ec16fe0dfa6680344 https://www.encodeproject.org/files/ENCFF639TOU/@@download/ENCFF639TOU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity experiment not submitted to GEO poor library complexity, severe bottlenecking missing control alignments ENCFF002DDD bed narrowPeak optimal idr thresholded peaks ENCSR000DUX ChIP-seq CL:0002557 fibroblast of pulmonary artery primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HQA, ENCFF001HQF 1280589 ENCODE Consortium Analysis Working Group 6eef776fc803129c517249a6d8cc4b18 https://www.encodeproject.org/files/ENCFF002DDD/@@download/ENCFF002DDD.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms missing control alignments ENCFF933VBD bed narrowPeak optimal idr thresholded peaks ENCSR000DUX ChIP-seq CL:0002557 fibroblast of pulmonary artery primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF470ARY, ENCFF541OOY, ENCFF610GLP 739247 ENCODE Processing Pipeline a0ca7418cb4781ded156ca6489564a8e https://www.encodeproject.org/files/ENCFF933VBD/@@download/ENCFF933VBD.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms missing control alignments ENCFF002CNA bed narrowPeak optimal idr thresholded peaks ENCSR000BJO ChIP-seq EFO:0002713 Panc1 cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 138538 ENCODE Consortium Analysis Working Group 9f4fb7fe59cb2f7d0c36b24f5131465d https://www.encodeproject.org/files/ENCFF002CNA/@@download/ENCFF002CNA.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF809ECY bed narrowPeak optimal idr thresholded peaks ENCSR000BJO ChIP-seq EFO:0002713 Panc1 cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF010OHK, ENCFF343XMY, ENCFF806MDV 130269 ENCODE Processing Pipeline 399777c2cb290a54d476ab74c5d32b5c https://www.encodeproject.org/files/ENCFF809ECY/@@download/ENCFF809ECY.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CKM bed narrowPeak optimal idr thresholded peaks ENCSR000BMC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HDAC2-human DNA see document see document False 2011-07-18 ENCODE 448406 ENCODE Consortium Analysis Working Group 5ddcd742a555f8e2d7f1e61636550a9e https://www.encodeproject.org/files/ENCFF002CKM/@@download/ENCFF002CKM.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF459DRJ bed narrowPeak optimal idr thresholded peaks ENCSR000BMC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HDAC2-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF380BKK, ENCFF561VAE, ENCFF724UMT 459887 ENCODE Processing Pipeline c7902bf5a399621d8bc456b6fcbdcae4 https://www.encodeproject.org/files/ENCFF459DRJ/@@download/ENCFF459DRJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample ENCFF002CXV bed narrowPeak optimal idr thresholded peaks ENCSR000EGO ChIP-seq EFO:0002067 K562 cell line Homo sapiens RFX5-human DNA see document see document False 2011-10-29 ENCODE 58297 ENCODE Consortium Analysis Working Group 84fc3a4909c0a97058659fbe659e0f55 https://www.encodeproject.org/files/ENCFF002CXV/@@download/ENCFF002CXV.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF716LRI bed narrowPeak optimal idr thresholded peaks ENCSR000EGO ChIP-seq EFO:0002067 K562 cell line Homo sapiens RFX5-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF066GNV, ENCFF439SZI, ENCFF536YVV 52639 ENCODE Processing Pipeline 175fa8254c3ee7f766ed461e264093dd https://www.encodeproject.org/files/ENCFF716LRI/@@download/ENCFF716LRI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DCH bed narrowPeak optimal idr thresholded peaks ENCSR000DRE ChIP-seq EFO:0005338 GM12865 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2, 3 ENCFF001HCD, ENCFF001HCE, ENCFF001HCL 921051 ENCODE Consortium Analysis Working Group 0c6742bbbd8830e32e485a7b43f857a5 https://www.encodeproject.org/files/ENCFF002DCH/@@download/ENCFF002DCH.bed.gz hg19 archived control low read depth, low read length, low read depth, inconsistent platforms missing raw data in replicate insufficient read depth missing control alignments ENCFF132AJR bed narrowPeak optimal idr thresholded peaks ENCSR000DRE ChIP-seq EFO:0005338 GM12865 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 2, 3 ENCFF001TDO, ENCFF109JHW, ENCFF583NIC, ENCFF867NAA 606092 ENCODE Processing Pipeline c933cf05e523d56a4937c4b313fc01ea https://www.encodeproject.org/files/ENCFF132AJR/@@download/ENCFF132AJR.bed.gz hg19 released control low read depth, low read length, low read depth, inconsistent platforms missing raw data in replicate insufficient read depth missing control alignments ENCFF210PLK bed narrowPeak optimal idr thresholded peaks ENCSR000DKP ChIP-seq EFO:0005334 GM10248 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF049XKA, ENCFF251JON, ENCFF927PCL 563417 ENCODE Processing Pipeline e0ba950f98c4bcacedd5503af90fa466 https://www.encodeproject.org/files/ENCFF210PLK/@@download/ENCFF210PLK.bed.gz hg19 released mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth control extremely low read depth, missing control alignments ENCFF002CZD bed narrowPeak optimal idr thresholded peaks ENCSR000DPC ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens afimoxifene 1.0 μM 36.0 hour POLR2A-human DNA see document see document False 2011-10-29 ENCODE 405977 ENCODE Consortium Analysis Working Group 08839c9712a46f3c8dba5a362fd08e48 https://www.encodeproject.org/files/ENCFF002CZD/@@download/ENCFF002CZD.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from severe bottlenecking ENCFF260TYP bed narrowPeak optimal idr thresholded peaks ENCSR000DPC ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens afimoxifene 1.0 μM 36.0 hour POLR2A-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF602AWU, ENCFF647MSK, ENCFF809DQX 499425 ENCODE Processing Pipeline 49b9762263b369ef504822257579d70d https://www.encodeproject.org/files/ENCFF260TYP/@@download/ENCFF260TYP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample severe bottlenecking ENCFF002CWP bed narrowPeak optimal idr thresholded peaks ENCSR000EWM ChIP-seq EFO:0002067 K562 cell line Homo sapiens GATA1-human DNA see document see document False 2011-10-29 ENCODE 80803 ENCODE Consortium Analysis Working Group cd1050d97484e1762c9332c2fe2467ac https://www.encodeproject.org/files/ENCFF002CWP/@@download/ENCFF002CWP.bed.gz hg19 archived borderline replicate concordance biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length extremely low read depth ENCFF659WGE bed narrowPeak optimal idr thresholded peaks ENCSR000EWM ChIP-seq EFO:0002067 K562 cell line Homo sapiens GATA1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF281ONW, ENCFF830VFD, ENCFF942MUF 69686 ENCODE Processing Pipeline 1173386ed1cdefa8840fec380d4ffbde https://www.encodeproject.org/files/ENCFF659WGE/@@download/ENCFF659WGE.bed.gz hg19 released borderline replicate concordance biological replicates with identical biosample insufficient read depth, insufficient read length extremely low read depth ENCFF002CSE bed narrowPeak optimal idr thresholded peaks ENCSR000EZD ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MYC-human DNA see document see document False 2011-10-29 ENCODE 253559 ENCODE Consortium Analysis Working Group cd0ff8cf66b0bac2ec9a653fc3344457 https://www.encodeproject.org/files/ENCFF002CSE/@@download/ENCFF002CSE.bed.gz hg19 archived control low read depth, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length extremely low read depth ENCFF688IPV bed narrowPeak optimal idr thresholded peaks ENCSR000EZD ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MYC-human DNA see document see document False 2011-10-29 ENCODE 209732 ENCODE Processing Pipeline d176f07488f92bc027468a9db6d5bd4d https://www.encodeproject.org/files/ENCFF688IPV/@@download/ENCFF688IPV.bed.gz hg19 archived control low read depth, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length extremely low read depth ENCFF950LQM bed narrowPeak optimal idr thresholded peaks ENCSR000EZD ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MYC-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF045UZK, ENCFF224GZD, ENCFF471HJA 209438 ENCODE Processing Pipeline 9c585bf7485ac45eac9214d50fa11e73 https://www.encodeproject.org/files/ENCFF950LQM/@@download/ENCFF950LQM.bed.gz hg19 released control low read depth, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample insufficient read depth, insufficient read length extremely low read depth ENCFF002CFL bed narrowPeak optimal idr thresholded peaks ENCSR000BPT ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour ELF1-human DNA see document see document False 2012-02-29 ENCODE 213909 ENCODE Consortium Analysis Working Group 6a7358ad55f86356616458ebbb57edf0 https://www.encodeproject.org/files/ENCFF002CFL/@@download/ENCFF002CFL.bed.gz hg19 archived low read length missing derived_from, biological replicates with identical biosample ENCFF533NIV bed narrowPeak optimal idr thresholded peaks ENCSR000BPT ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour ELF1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF200DAE, ENCFF386WPS, ENCFF731JIX 201656 ENCODE Processing Pipeline 8235e20c036071844e126474e0b8d102 https://www.encodeproject.org/files/ENCFF533NIV/@@download/ENCFF533NIV.bed.gz hg19 released low read length biological replicates with identical biosample ENCFF002CGW bed narrowPeak optimal idr thresholded peaks ENCSR000BRG ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EGR1-human DNA see document see document False 2012-02-29 ENCODE 424286 ENCODE Consortium Analysis Working Group 8cf58cb06c7dc27907e9926a5f293f4b https://www.encodeproject.org/files/ENCFF002CGW/@@download/ENCFF002CGW.bed.gz hg19 archived low read length, low read depth missing derived_from ENCFF002CZC bed narrowPeak optimal idr thresholded peaks ENCSR000DPA ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens ethanol 0.01 percent 36.0 hour POLR2A-human DNA see document see document False 2011-10-29 ENCODE 467001 ENCODE Consortium Analysis Working Group c436ecd661c55364f3901b59af6fe912 https://www.encodeproject.org/files/ENCFF002CZC/@@download/ENCFF002CZC.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization missing derived_from, biological replicates with identical biosample ENCFF755ZCF bed narrowPeak optimal idr thresholded peaks ENCSR000DPA ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens ethanol 0.01 percent 36.0 hour POLR2A-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF416ZYS, ENCFF675BQE, ENCFF693FLN 619381 ENCODE Processing Pipeline 1125f1f23d710df31354a0cd75855822 https://www.encodeproject.org/files/ENCFF755ZCF/@@download/ENCFF755ZCF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization biological replicates with identical biosample ENCFF002CNT bed narrowPeak optimal idr thresholded peaks ENCSR000BNO ChIP-seq EFO:0001247 T47D cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour CTCF-human DNA see document see document False 2011-07-18 ENCODE 728239 ENCODE Consortium Analysis Working Group b9dfea54d51b2cbafe754f0cff688fb3 https://www.encodeproject.org/files/ENCFF002CNT/@@download/ENCFF002CNT.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF903ZMF bed narrowPeak optimal idr thresholded peaks ENCSR000BNO ChIP-seq EFO:0001247 T47D cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour CTCF-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF885ILM, ENCFF976NKK, ENCFF986CUM 482518 ENCODE Processing Pipeline 765dd9a4fdebd8971d21488e7b273e3a https://www.encodeproject.org/files/ENCFF903ZMF/@@download/ENCFF903ZMF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF673PTK bed narrowPeak optimal idr thresholded peaks ENCSR000EIB ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens JUND-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF398EYK, ENCFF413ZYK, ENCFF830ZWP 555908 ENCODE Processing Pipeline 152128b76890ff621885ed224a0216df https://www.encodeproject.org/files/ENCFF673PTK/@@download/ENCFF673PTK.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CWL bed narrowPeak optimal idr thresholded peaks ENCSR000EGM ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTCF-human DNA see document see document False 2012-05-14 ENCODE 1125159 ENCODE Consortium Analysis Working Group 7c774d345a596a6b268fcab76040507a https://www.encodeproject.org/files/ENCFF002CWL/@@download/ENCFF002CWL.bed.gz hg19 archived low read length, mild to moderate bottlenecking, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF738TKN bed narrowPeak optimal idr thresholded peaks ENCSR000EGM ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTCF-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF264LXL, ENCFF545EHA, ENCFF595QHF 905102 ENCODE Processing Pipeline 8635b84f3c5785702257302d4b4b8f8a https://www.encodeproject.org/files/ENCFF738TKN/@@download/ENCFF738TKN.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CUH bed narrowPeak optimal idr thresholded peaks ENCSR000EEB ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAFK-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF000XTT, ENCFF000XTU 1495650 ENCODE Consortium Analysis Working Group cd32b8a67b4dd94e08b140c8274ccf9f https://www.encodeproject.org/files/ENCFF002CUH/@@download/ENCFF002CUH.bed.gz hg19 archived low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF718CQQ bed narrowPeak optimal idr thresholded peaks ENCSR000EEB ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAFK-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF016LSH, ENCFF067XYR, ENCFF092FFG 1231199 ENCODE Processing Pipeline c064056c9a2aee65e331abb72aa9a0e8 https://www.encodeproject.org/files/ENCFF718CQQ/@@download/ENCFF718CQQ.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF598VEK bed narrowPeak optimal idr thresholded peaks ENCSR525YFS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZBTB40-human DNA False 2016-08-01 ENCODE 1, 2 ENCFF001TDO, ENCFF246GJS, ENCFF741YYS, ENCFF829CKQ 120849 ENCODE Processing Pipeline caa96ece080332e78a21cb467dfbe8d6 https://www.encodeproject.org/files/ENCFF598VEK/@@download/ENCFF598VEK.bed.gz hg19 released antibody characterized with exemption ENCFF002DCQ bed narrowPeak optimal idr thresholded peaks ENCSR000DTF ChIP-seq CL:0002548 cardiac fibroblast primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1 ENCFF001HKB 807242 ENCODE Consortium Analysis Working Group fde7e0859c20ba18cda848aa9ceffad1 https://www.encodeproject.org/files/ENCFF002DCQ/@@download/ENCFF002DCQ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms ENCFF002CYS bed narrowPeak optimal idr thresholded peaks ENCSR000EWN ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF263-human DNA see document see document False 2011-10-29 ENCODE 63718 ENCODE Consortium Analysis Working Group 78068fe6a83e3950baf4430d38749f04 https://www.encodeproject.org/files/ENCFF002CYS/@@download/ENCFF002CYS.bed.gz hg19 archived missing derived_from, biological replicates with identical biosample insufficient read length extremely low read depth ENCFF891MVM bed narrowPeak optimal idr thresholded peaks ENCSR000EWN ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZNF263-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF051FKL, ENCFF100FXA, ENCFF537UES 67975 ENCODE Processing Pipeline 6f1947b757a7ffc01cf96e02420dce62 https://www.encodeproject.org/files/ENCFF891MVM/@@download/ENCFF891MVM.bed.gz hg19 released biological replicates with identical biosample insufficient read length extremely low read depth ENCFF583DZD bed narrowPeak optimal idr thresholded peaks ENCSR737LTZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens MYNN-human DNA False 2016-04-01 ENCODE 1, 2 ENCFF001TDO, ENCFF004MPD, ENCFF361PJU, ENCFF643XPE 256420 ENCODE Processing Pipeline 6d801259152b94d89a2e782b987fca27 https://www.encodeproject.org/files/ENCFF583DZD/@@download/ENCFF583DZD.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF002CVD bed narrowPeak optimal idr thresholded peaks ENCSR000EVW ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens GATA2-human DNA see document see document False 2011-10-29 ENCODE 559821 ENCODE Consortium Analysis Working Group 45e0cb0ddada7adb182b762411f4c1c0 https://www.encodeproject.org/files/ENCFF002CVD/@@download/ENCFF002CVD.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF822SAU bed narrowPeak optimal idr thresholded peaks ENCSR000EVW ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens GATA2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF222CSK, ENCFF311XFB, ENCFF991EAY 506227 ENCODE Processing Pipeline b147b14daf5660d3097f5ce840d9be19 https://www.encodeproject.org/files/ENCFF822SAU/@@download/ENCFF822SAU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CEN bed narrowPeak optimal idr thresholded peaks ENCSR000AQF ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC1-human DNA see document see document False 2012-03-06 ENCODE 274053 ENCODE Consortium Analysis Working Group f5a3c9dd317402f9b15b3c8a2028839c https://www.encodeproject.org/files/ENCFF002CEN/@@download/ENCFF002CEN.bed.gz hg19 archived moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing derived_from, biological replicates with identical biosample, missing raw data in replicate insufficient replicate concordance ENCFF357NRL bed narrowPeak optimal idr thresholded peaks ENCSR000AQF ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC1-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF200WFO, ENCFF445XTX, ENCFF624ZMB 306918 ENCODE Processing Pipeline 4beb039261783c24cc5bb12c501a81ac https://www.encodeproject.org/files/ENCFF357NRL/@@download/ENCFF357NRL.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth biological replicates with identical biosample, missing raw data in replicate insufficient replicate concordance ENCFF002CFM bed narrowPeak optimal idr thresholded peaks ENCSR000BPU ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour ETS1-human DNA see document see document False 2012-02-29 ENCODE 129154 ENCODE Consortium Analysis Working Group f524690b4c0d59f8495f5b18cd0757dc https://www.encodeproject.org/files/ENCFF002CFM/@@download/ENCFF002CFM.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth missing derived_from, biological replicates with identical biosample ENCFF297HAT bed narrowPeak optimal idr thresholded peaks ENCSR000BPU ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour ETS1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF276JRH, ENCFF394JUH, ENCFF998WPB 180375 ENCODE Processing Pipeline bf0caaa46405e97b31b7ab3ec0c68245 https://www.encodeproject.org/files/ENCFF297HAT/@@download/ENCFF297HAT.bed.gz hg19 released low read length, borderline replicate concordance, low read depth biological replicates with identical biosample ENCFF002CRQ bed narrowPeak optimal idr thresholded peaks ENCSR000EVD ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens ZNF263-human DNA see document see document False 2011-10-29 ENCODE 624271 ENCODE Consortium Analysis Working Group d303f02a1d97ffeca6956990ab0c9ed0 https://www.encodeproject.org/files/ENCFF002CRQ/@@download/ENCFF002CRQ.bed.gz hg19 released low read length, low read depth, mixed read lengths biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CUP bed narrowPeak optimal idr thresholded peaks ENCSR000EEP ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens forskolin and pyruvate 6.0 hour POLR2A-human DNA see document see document False 2011-10-29 ENCODE 550142 ENCODE Consortium Analysis Working Group 726645eb31e03f0c961b3c8123096686 https://www.encodeproject.org/files/ENCFF002CUP/@@download/ENCFF002CUP.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF828JWK bed narrowPeak optimal idr thresholded peaks ENCSR416QLJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-CEBPB-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF408FLA, ENCFF441YTV, ENCFF519FSK 1173339 ENCODE Processing Pipeline 497b62adf65e7673d2d5bc8fa194a587 https://www.encodeproject.org/files/ENCFF828JWK/@@download/ENCFF828JWK.bed.gz hg19 released missing genetic modification characterization ENCFF002CXH bed narrowPeak optimal idr thresholded peaks ENCSR000FAF ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFE2-human DNA see document see document False 2011-10-29 ENCODE 53709 ENCODE Consortium Analysis Working Group 3fa5b2aaff7064f6bb43628c6a33c4a5 https://www.encodeproject.org/files/ENCFF002CXH/@@download/ENCFF002CXH.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF335GSE bed narrowPeak optimal idr thresholded peaks ENCSR000AUE ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 100 nM 1 hour CTCF-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF014XSY, ENCFF142SVH, ENCFF781ICW 934065 ENCODE Processing Pipeline 1d3fadf80cf68565771e62c429c76195 https://www.encodeproject.org/files/ENCFF335GSE/@@download/ENCFF335GSE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CHK bed narrowPeak optimal idr thresholded peaks ENCSR000BHJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens PAX5-human DNA see document see document False 2011-07-18 ENCODE 383139 ENCODE Consortium Analysis Working Group bc78187f95b7ecfb2d41029a2b41319d https://www.encodeproject.org/files/ENCFF002CHK/@@download/ENCFF002CHK.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF199FYD bed narrowPeak optimal idr thresholded peaks ENCSR000BHJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens PAX5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF194IYQ, ENCFF735NFJ, ENCFF906INE 384049 ENCODE Processing Pipeline 07b55f11fdb125a63ab500f783d05d7b https://www.encodeproject.org/files/ENCFF199FYD/@@download/ENCFF199FYD.bed.gz hg19 released low read length, borderline replicate concordance, low read depth biological replicates with identical biosample insufficient read depth ENCFF002CJH bed narrowPeak optimal idr thresholded peaks ENCSR000BJW ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RXRA-human DNA see document see document False 2011-07-18 ENCODE 26542 ENCODE Consortium Analysis Working Group 156a09ea326e6d92c3b83927c6116c75 https://www.encodeproject.org/files/ENCFF002CJH/@@download/ENCFF002CJH.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF369JAI bed narrowPeak optimal idr thresholded peaks ENCSR000BJW ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RXRA-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF673CDR, ENCFF701HCP, ENCFF914ZYY 35031 ENCODE Processing Pipeline 45eac8a6717368c2995378b49497d131 https://www.encodeproject.org/files/ENCFF369JAI/@@download/ENCFF369JAI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CVE bed narrowPeak optimal idr thresholded peaks ENCSR000EEZ ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens MAX-human DNA see document see document False 2011-10-29 ENCODE 202694 ENCODE Consortium Analysis Working Group 49d2220b47726f1448c459b0c7fdb9f0 https://www.encodeproject.org/files/ENCFF002CVE/@@download/ENCFF002CVE.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002DAX bed narrowPeak optimal idr thresholded peaks ENCSR000DLS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 754913 ENCODE Consortium Analysis Working Group ecbae2a248b1e92b1f5eb99c8d762a63 https://www.encodeproject.org/files/ENCFF002DAX/@@download/ENCFF002DAX.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002COD bed narrowPeak optimal idr thresholded peaks ENCSR000DYI ChIP-seq EFO:0001086 A549 cell line Homo sapiens CEBPB-human DNA see document see document False 2012-05-14 ENCODE 852505 ENCODE Consortium Analysis Working Group ebe8fa2c3ea787b5fd903756eff2a90f https://www.encodeproject.org/files/ENCFF002COD/@@download/ENCFF002COD.bed.gz hg19 archived low read length, low read depth, inconsistent platforms, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF243NQJ bed narrowPeak optimal idr thresholded peaks ENCSR000DYI ChIP-seq EFO:0001086 A549 cell line Homo sapiens CEBPB-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF488XZE, ENCFF694VSV, ENCFF710XFQ 820421 ENCODE Processing Pipeline eba9d012ffcc64edd76e443df53f3662 https://www.encodeproject.org/files/ENCFF243NQJ/@@download/ENCFF243NQJ.bed.gz hg19 released low read length, low read depth, inconsistent platforms, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CJR bed narrowPeak optimal idr thresholded peaks ENCSR000BRY ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens TEAD4-human DNA see document see document False 2012-09-10 ENCODE 409026 ENCODE Consortium Analysis Working Group c852448911067252d6b3be1e7ea922d5 https://www.encodeproject.org/files/ENCFF002CJR/@@download/ENCFF002CJR.bed.gz hg19 released low read length, inconsistent platforms, mixed read lengths biological replicates with identical biosample, missing derived_from ENCFF849EEH bed narrowPeak optimal idr thresholded peaks ENCSR000EHY ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens RFX5-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF668SRV, ENCFF695DKI, ENCFF860WKG 158174 ENCODE Processing Pipeline 37f5f64bc9fc3481a401537dd3e2b6f8 https://www.encodeproject.org/files/ENCFF849EEH/@@download/ENCFF849EEH.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CYM bed narrowPeak optimal idr thresholded peaks ENCSR000EWH ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR2C2-human DNA see document see document False 2011-10-29 ENCODE 15862 ENCODE Consortium Analysis Working Group 60ccba98270606ef6d27ffb5aff33ce6 https://www.encodeproject.org/files/ENCFF002CYM/@@download/ENCFF002CYM.bed.gz hg19 archived biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length ENCFF594LCH bed narrowPeak optimal idr thresholded peaks ENCSR000EWH ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR2C2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF342EJU, ENCFF837CQV, ENCFF841ZNM 11703 ENCODE Processing Pipeline b644a99d8801abfd2155e186effd31ba https://www.encodeproject.org/files/ENCFF594LCH/@@download/ENCFF594LCH.bed.gz hg19 released biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF612TRG bed narrowPeak optimal idr thresholded peaks ENCSR521IID ChIP-seq UBERON:0002107 liver tissue Homo sapiens MAX-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF137BQM, ENCFF371DUN, ENCFF409TGM 593414 ENCODE Processing Pipeline 4f8617bfcdcb64e666fd3bea1450f25e https://www.encodeproject.org/files/ENCFF612TRG/@@download/ENCFF612TRG.bed.gz hg19 released antibody characterized with exemption biological replicates with identical biosample ENCFF002COJ bed narrowPeak optimal idr thresholded peaks ENCSR000DYO ChIP-seq EFO:0005336 GM10847 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 189558 ENCODE Consortium Analysis Working Group 0cb765f6f19df5ccb6d76a0be9b96989 https://www.encodeproject.org/files/ENCFF002COJ/@@download/ENCFF002COJ.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002DDW bed narrowPeak optimal idr thresholded peaks ENCSR000DKA ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-GATA2-human DNA see document see document False 2011-06-03 ENCODE 259658 ENCODE Consortium Analysis Working Group 0418ee5601643d9817ef8322430bf64c https://www.encodeproject.org/files/ENCFF002DDW/@@download/ENCFF002DDW.bed.gz hg19 archived low read length, low read depth, missing genetic modification characterization missing derived_from insufficient replicate concordance ENCFF929YBC bed narrowPeak optimal idr thresholded peaks ENCSR000DKA ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-GATA2-human DNA see document see document False 2011-06-03 ENCODE 1, 2 ENCFF001TDO, ENCFF185LGX, ENCFF444LYN, ENCFF766MMM 366797 ENCODE Processing Pipeline c240b9984e20cb1538912c0c4aa2b41c https://www.encodeproject.org/files/ENCFF929YBC/@@download/ENCFF929YBC.bed.gz hg19 released low read length, low read depth, missing genetic modification characterization insufficient replicate concordance ENCFF002DCE bed narrowPeak optimal idr thresholded peaks ENCSR000DQW ChIP-seq EFO:0002783 GM06990 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HAP, ENCFF001HAR 930755 ENCODE Consortium Analysis Working Group 60012a39f4d1835552dfba16dc8331a7 https://www.encodeproject.org/files/ENCFF002DCE/@@download/ENCFF002DCE.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms insufficient read depth, poor library complexity, severe bottlenecking ENCFF930QUM bed narrowPeak optimal idr thresholded peaks ENCSR000DQW ChIP-seq EFO:0002783 GM06990 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF174YEU, ENCFF276JDQ, ENCFF830SNU 736511 ENCODE Processing Pipeline bd61a515467d59a908d9e5668b3e868e https://www.encodeproject.org/files/ENCFF930QUM/@@download/ENCFF930QUM.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms insufficient read depth, poor library complexity, severe bottlenecking ENCFF002CGB bed narrowPeak optimal idr thresholded peaks ENCSR000BQQ ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour TCF12-human DNA see document see document False 2012-02-29 ENCODE 458743 ENCODE Consortium Analysis Working Group ac322aa7e90c92f92ae5c1fb1812dd23 https://www.encodeproject.org/files/ENCFF002CGB/@@download/ENCFF002CGB.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance missing derived_from, biological replicates with identical biosample ENCFF672FQU bed narrowPeak optimal idr thresholded peaks ENCSR000BQQ ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour TCF12-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF396UAX, ENCFF842BMF, ENCFF866QPM 537307 ENCODE Processing Pipeline 4efdaea798e890432a3edc08cd6cb780 https://www.encodeproject.org/files/ENCFF672FQU/@@download/ENCFF672FQU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample ENCFF002CGN bed narrowPeak optimal idr thresholded peaks ENCSR000BKI ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour POLR2A-human DNA see document see document False 2011-07-18 ENCODE 418175 ENCODE Consortium Analysis Working Group 36b7722603f1d56d75d0843e8ef1ee81 https://www.encodeproject.org/files/ENCFF002CGN/@@download/ENCFF002CGN.bed.gz hg19 archived low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF798SFE bed narrowPeak optimal idr thresholded peaks ENCSR000BKI ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF167HXK, ENCFF774TTQ, ENCFF973RWT 531262 ENCODE Processing Pipeline 6089801f97aa2770692aaefbb5eaee76 https://www.encodeproject.org/files/ENCFF798SFE/@@download/ENCFF798SFE.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF002DAZ bed narrowPeak optimal idr thresholded peaks ENCSR000DLU ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens MYC-human DNA see document see document False 2011-03-17 ENCODE 98320 ENCODE Consortium Analysis Working Group ed57885cdc2e621df9fe2934c4f4bd93 https://www.encodeproject.org/files/ENCFF002DAZ/@@download/ENCFF002DAZ.bed.gz hg19 released low read length, mild to moderate bottlenecking missing derived_from insufficient read depth ENCFF881EJW bed narrowPeak optimal idr thresholded peaks ENCSR085IXF ChIP-seq UBERON:0002107 liver tissue Homo sapiens SP1-human DNA False 2018-02-08 ENCODE 1, 2 ENCFF001TDO, ENCFF204PED, ENCFF502LWJ, ENCFF512BFW 1278434 ENCODE Processing Pipeline 9db9e2a5dead65918863cdd899a150cd https://www.encodeproject.org/files/ENCFF881EJW/@@download/ENCFF881EJW.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample, experiment not submitted to GEO ENCFF002CXJ bed narrowPeak optimal idr thresholded peaks ENCSR000EGQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFYB-human DNA see document see document False 2011-10-29 ENCODE 207601 ENCODE Consortium Analysis Working Group 7ba84d9348d64c9aa4530e5b7b77c40e https://www.encodeproject.org/files/ENCFF002CXJ/@@download/ENCFF002CXJ.bed.gz hg19 archived mild to moderate bottlenecking, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read length extremely low read depth ENCFF113PMT bed narrowPeak optimal idr thresholded peaks ENCSR000EGQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFYB-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF180NNF, ENCFF193FRQ, ENCFF570JVX 159170 ENCODE Processing Pipeline 17bb2e1d538afdee207dfa2b58c5fa95 https://www.encodeproject.org/files/ENCFF113PMT/@@download/ENCFF113PMT.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read length extremely low read depth ENCFF975PTM bed narrowPeak optimal idr thresholded peaks ENCSR480LIS ChIP-seq UBERON:0002107 liver tissue Homo sapiens ATF3-human DNA False 2016-03-31 ENCODE 1, 2 ENCFF001TDO, ENCFF189KUR, ENCFF770XDD, ENCFF788BDL 419388 ENCODE Processing Pipeline a00b36b1c73079054c5df7c5d21b322e https://www.encodeproject.org/files/ENCFF975PTM/@@download/ENCFF975PTM.bed.gz hg19 released low read depth, antibody characterized with exemption biological replicates with identical biosample ENCFF002CPD bed narrowPeak optimal idr thresholded peaks ENCSR000DZO ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NRF1-human DNA see document see document False 2011-10-29 ENCODE 141778 ENCODE Consortium Analysis Working Group a1d333c58e9391193651f7f27ef10f3f https://www.encodeproject.org/files/ENCFF002CPD/@@download/ENCFF002CPD.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF931XAL bed narrowPeak optimal idr thresholded peaks ENCSR000DZO ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NRF1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF502JYT, ENCFF562LQW, ENCFF789TQP 90284 ENCODE Processing Pipeline 49b2701b7ddb6de70c1f665a1d884702 https://www.encodeproject.org/files/ENCFF931XAL/@@download/ENCFF931XAL.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CSD bed narrowPeak optimal idr thresholded peaks ENCSR000EDG ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens JUN-human DNA see document see document False 2011-10-29 ENCODE 540407 ENCODE Consortium Analysis Working Group 48b2d8533a6c3c059d9939f1cc1964cc https://www.encodeproject.org/files/ENCFF002CSD/@@download/ENCFF002CSD.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CQK bed narrowPeak optimal idr thresholded peaks ENCSR000EBC ChIP-seq EFO:0005349 GM18951 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 443569 ENCODE Consortium Analysis Working Group 6a5965fab5cdaddbefb2439220bac293 https://www.encodeproject.org/files/ENCFF002CQK/@@download/ENCFF002CQK.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CTR bed narrowPeak optimal idr thresholded peaks ENCSR000DNT ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens ZZZ3-human DNA see document see document False 2011-10-29 ENCODE 7257 ENCODE Consortium Analysis Working Group 7695f41be364380f1e726d98727cc044 https://www.encodeproject.org/files/ENCFF002CTR/@@download/ENCFF002CTR.bed.gz hg19 released low read length, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF280GDT bed narrowPeak optimal idr thresholded peaks ENCSR000BTK ChIP-seq EFO:0002793 HL-60 cell line Homo sapiens GABPA-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF148CAJ, ENCFF647DHT, ENCFF847KJV 165440 ENCODE Processing Pipeline 703045c5651246291956c1efe81a8e2e https://www.encodeproject.org/files/ENCFF280GDT/@@download/ENCFF280GDT.bed.gz hg19 released low read depth biological replicates with identical biosample ENCFF456PQY bed narrowPeak optimal idr thresholded peaks ENCSR000ATW ChIP-seq EFO:0002067 K562 cell line Homo sapiens CBX8-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF259GGN, ENCFF878IXX, ENCFF899WHU 84138 ENCODE Processing Pipeline fd9253bc90bc6d93040317f11af2b98a https://www.encodeproject.org/files/ENCFF456PQY/@@download/ENCFF456PQY.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, mixed run types, control low read depth, low read depth, mixed read lengths mismatched status poor library complexity, insufficient replicate concordance, severe bottlenecking extremely low read depth ENCFF739PUT bed narrowPeak optimal idr thresholded peaks ENCSR016BMM ChIP-seq UBERON:0002107 liver tissue Homo sapiens TAF1-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF225XDH, ENCFF407JBN, ENCFF903KIH 240640 ENCODE Processing Pipeline 0de78ae36c8572df537336ab5bdb9f6d https://www.encodeproject.org/files/ENCFF739PUT/@@download/ENCFF739PUT.bed.gz hg19 released mild to moderate bottlenecking, antibody characterized with exemption biological replicates with identical biosample ENCFF002CQX bed narrowPeak optimal idr thresholded peaks ENCSR000EBP ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens GTF2F1-human DNA see document see document False 2012-05-14 ENCODE 94669 ENCODE Consortium Analysis Working Group 427a7b651ee385dd96cfceb8e2f7a08d https://www.encodeproject.org/files/ENCFF002CQX/@@download/ENCFF002CQX.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF205YOD bed narrowPeak optimal idr thresholded peaks ENCSR000EBP ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens GTF2F1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF211BEL, ENCFF258FIQ, ENCFF449PNR 77008 ENCODE Processing Pipeline c922c340580a815e7117f367dda72e7b https://www.encodeproject.org/files/ENCFF205YOD/@@download/ENCFF205YOD.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CGR bed narrowPeak optimal idr thresholded peaks ENCSR000BHA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BCL11A-human DNA see document see document False 2011-07-18 ENCODE 348483 ENCODE Consortium Analysis Working Group 52a244b336de35419f0cd40fab2edae1 https://www.encodeproject.org/files/ENCFF002CGR/@@download/ENCFF002CGR.bed.gz hg19 archived low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF468MFY bed narrowPeak optimal idr thresholded peaks ENCSR000BHA ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BCL11A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF046PLS, ENCFF080MVF, ENCFF289FQM 345367 ENCODE Processing Pipeline 7f180aca1612b6d01a7e549b1e685303 https://www.encodeproject.org/files/ENCFF468MFY/@@download/ENCFF468MFY.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF002CFH bed narrowPeak optimal idr thresholded peaks ENCSR000BQH ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour BCL3-human DNA see document see document False 2012-02-29 ENCODE 179680 ENCODE Consortium Analysis Working Group 438a33fdd8f029710327b3d6f6dbbce3 https://www.encodeproject.org/files/ENCFF002CFH/@@download/ENCFF002CFH.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF325WAV bed narrowPeak optimal idr thresholded peaks ENCSR000BQH ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour BCL3-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF395ZTW, ENCFF464UMR, ENCFF746BWA 232452 ENCODE Processing Pipeline 0842e3bc3cde1110bda1860a4a18a8fc https://www.encodeproject.org/files/ENCFF325WAV/@@download/ENCFF325WAV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002DCT bed narrowPeak optimal idr thresholded peaks ENCSR000DTO ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HLO, ENCFF001HLP 1029268 ENCODE Consortium Analysis Working Group ac9c4f461d11122b8f3cf90373558794 https://www.encodeproject.org/files/ENCFF002DCT/@@download/ENCFF002DCT.bed.gz hg19 archived control low read depth, low read length, low read depth ENCFF364QXM bed narrowPeak optimal idr thresholded peaks ENCSR000DTO ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF498JUY, ENCFF655DUF, ENCFF988DJT 813755 ENCODE Processing Pipeline 28ab0b38761553ef323901ac055b31f4 https://www.encodeproject.org/files/ENCFF364QXM/@@download/ENCFF364QXM.bed.gz hg19 released control low read depth, low read length, low read depth ENCFF002CJX bed narrowPeak optimal idr thresholded peaks ENCSR000BHS ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens GABPA-human DNA see document see document False 2011-07-18 ENCODE 154682 ENCODE Consortium Analysis Working Group 9fdb5aba41ec5ae9b95ad2a0c5edd14a https://www.encodeproject.org/files/ENCFF002CJX/@@download/ENCFF002CJX.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF793BVO bed narrowPeak optimal idr thresholded peaks ENCSR000BHS ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens GABPA-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF428HJN, ENCFF588CWW, ENCFF985GJY 134074 ENCODE Processing Pipeline 3b852f9fa019239b89ab2631c48a10a8 https://www.encodeproject.org/files/ENCFF793BVO/@@download/ENCFF793BVO.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF002CRV bed narrowPeak optimal idr thresholded peaks ENCSR000DNX ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens BDP1-human DNA see document see document False 2011-10-29 ENCODE 13232 ENCODE Consortium Analysis Working Group fe274615f1addff9d92690272a00fbc4 https://www.encodeproject.org/files/ENCFF002CRV/@@download/ENCFF002CRV.bed.gz hg19 released inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CLH bed narrowPeak optimal idr thresholded peaks ENCSR000BGM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens USF1-human DNA see document see document False 2011-07-18 ENCODE 472354 ENCODE Consortium Analysis Working Group 4f5fc00411508310c161a6b2e77695e1 https://www.encodeproject.org/files/ENCFF002CLH/@@download/ENCFF002CLH.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample, missing derived_from ENCFF684BLN bed narrowPeak optimal idr thresholded peaks ENCSR000BGM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens USF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF308DEQ, ENCFF316GUJ, ENCFF805TIZ 400681 ENCODE Processing Pipeline 3899b7d76e13cf4087901a7fac9fddb1 https://www.encodeproject.org/files/ENCFF684BLN/@@download/ENCFF684BLN.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample ENCFF002CWC bed narrowPeak optimal idr thresholded peaks ENCSR000FAH ChIP-seq EFO:0002067 K562 cell line Homo sapiens JUN-human DNA see document see document False 2011-10-29 ENCODE 192247 ENCODE Consortium Analysis Working Group abdba0bac5cb6444fefa32850edddc63 https://www.encodeproject.org/files/ENCFF002CWC/@@download/ENCFF002CWC.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF344EDE bed narrowPeak optimal idr thresholded peaks ENCSR080XEY ChIP-seq UBERON:0002107 liver tissue Homo sapiens FOXA2-human DNA False 2016-06-30 ENCODE 1, 2 ENCFF001TDO, ENCFF216JDJ, ENCFF539QIT, ENCFF555YAB 474546 ENCODE Processing Pipeline d3e6b822f6c76b83e10faeeac4e38d0c https://www.encodeproject.org/files/ENCFF344EDE/@@download/ENCFF344EDE.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, antibody characterized with exemption biological replicates with identical biosample ENCFF002CSC bed narrowPeak optimal idr thresholded peaks ENCSR000ECP ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens CHD2-human DNA see document see document False 2011-10-29 ENCODE 509760 ENCODE Consortium Analysis Working Group 74a3d8795885876e1e4b953d6b54fe98 https://www.encodeproject.org/files/ENCFF002CSC/@@download/ENCFF002CSC.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from ENCFF002CHZ bed narrowPeak optimal idr thresholded peaks ENCSR000BGZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TCF12-human DNA see document see document False 2011-07-18 ENCODE 395086 ENCODE Consortium Analysis Working Group 872fa752845c6d02b3cb1d6ca221bf1f https://www.encodeproject.org/files/ENCFF002CHZ/@@download/ENCFF002CHZ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF160WLU bed narrowPeak optimal idr thresholded peaks ENCSR000BGZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TCF12-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF571QYV, ENCFF734EMB, ENCFF814CGS 441776 ENCODE Processing Pipeline 1de50ea947fc32b20c14525ecf1087ac https://www.encodeproject.org/files/ENCFF160WLU/@@download/ENCFF160WLU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002CNV bed narrowPeak optimal idr thresholded peaks ENCSR000BJS ChIP-seq EFO:0001247 T47D cell line Homo sapiens genistein 100 nM 1 hour ESR1-human DNA see document see document False 2011-07-18 ENCODE 272385 ENCODE Consortium Analysis Working Group 12dc7014881286d87e8c2f3746e29e6d https://www.encodeproject.org/files/ENCFF002CNV/@@download/ENCFF002CNV.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF516GZM bed narrowPeak optimal idr thresholded peaks ENCSR000BJS ChIP-seq EFO:0001247 T47D cell line Homo sapiens genistein 100 nM 1 hour ESR1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF198ZBJ, ENCFF421BMH, ENCFF785UNT 208549 ENCODE Processing Pipeline 27aebe53e5af34c047820fe32f992ef1 https://www.encodeproject.org/files/ENCFF516GZM/@@download/ENCFF516GZM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CXP bed narrowPeak optimal idr thresholded peaks ENCSR000FAW ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour POLR2A-human DNA see document see document False 2011-10-29 ENCODE 339689 ENCODE Consortium Analysis Working Group 595e0f35033a8d5a007f811923465a60 https://www.encodeproject.org/files/ENCFF002CXP/@@download/ENCFF002CXP.bed.gz hg19 archived control low read depth, mixed read lengths biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length ENCFF853ZMA bed narrowPeak optimal idr thresholded peaks ENCSR000FAW ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour POLR2A-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF070AMD, ENCFF504GWC, ENCFF960XPL 383287 ENCODE Processing Pipeline 414b0ad344508990af3dd892c5653dd3 https://www.encodeproject.org/files/ENCFF853ZMA/@@download/ENCFF853ZMA.bed.gz hg19 released control low read depth, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002DBY bed narrowPeak optimal idr thresholded peaks ENCSR000DPS ChIP-seq NTR:0000480 AG09319 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001GXP, ENCFF001GXR 987636 ENCODE Consortium Analysis Working Group 715ea220ec130c9be208be04461c66dc https://www.encodeproject.org/files/ENCFF002DBY/@@download/ENCFF002DBY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity NTR biosample ENCFF245PXW bed narrowPeak optimal idr thresholded peaks ENCSR000DPS ChIP-seq NTR:0000480 AG09319 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF053EST, ENCFF528DMI, ENCFF949AFF 631971 ENCODE Processing Pipeline 962745b1d6d487ac2007f2d725ee8996 https://www.encodeproject.org/files/ENCFF245PXW/@@download/ENCFF245PXW.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity NTR biosample ENCFF485WCF bed narrowPeak optimal idr thresholded peaks ENCSR771SNW ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CBX8-human DNA False 2016-12-06 ENCODE 1, 2 ENCFF001TDO, ENCFF384XYJ, ENCFF405QLV, ENCFF485GXE 50127 ENCODE Processing Pipeline 64865d8a339096577e031f83de5b9e37 https://www.encodeproject.org/files/ENCFF485WCF/@@download/ENCFF485WCF.bed.gz hg19 released low read length, borderline replicate concordance, low read depth experiment not submitted to GEO ENCFF232KAH bed narrowPeak optimal idr thresholded peaks ENCSR091GVJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-ATF1-human DNA False 2016-01-14 ENCODE 1, 2 ENCFF001TDO, ENCFF077HXE, ENCFF234YBT, ENCFF621JGB 847500 ENCODE Processing Pipeline c7510df2956ffb6634c5f8adaa79d8ec https://www.encodeproject.org/files/ENCFF232KAH/@@download/ENCFF232KAH.bed.gz hg19 released missing genetic modification characterization ENCFF002CSH bed narrowPeak optimal idr thresholded peaks ENCSR000EVL ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens E2F4-human DNA see document see document False 2011-10-29 ENCODE 72250 ENCODE Consortium Analysis Working Group b0ee76b4bd597ffc28d3fbb455b4bca8 https://www.encodeproject.org/files/ENCFF002CSH/@@download/ENCFF002CSH.bed.gz hg19 released inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CFS bed narrowPeak optimal idr thresholded peaks ENCSR000BHG ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 5 nM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 263337 ENCODE Consortium Analysis Working Group 219d9f444edeb30973949904d40d519e https://www.encodeproject.org/files/ENCFF002CFS/@@download/ENCFF002CFS.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF913WFD bed narrowPeak optimal idr thresholded peaks ENCSR000BHG ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 5 nM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF012IVJ, ENCFF055UFA, ENCFF457IQL 226305 ENCODE Processing Pipeline 7c2d8a1c2786b19864e7a6e535d292ce https://www.encodeproject.org/files/ENCFF913WFD/@@download/ENCFF913WFD.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CUY bed narrowPeak optimal idr thresholded peaks ENCSR000EVS ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens NR2C2-human DNA see document see document False 2011-10-29 ENCODE 68743 ENCODE Consortium Analysis Working Group 1341c254fe193f8e1b74e523a83b53fb https://www.encodeproject.org/files/ENCFF002CUY/@@download/ENCFF002CUY.bed.gz hg19 released inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CXD bed narrowPeak optimal idr thresholded peaks ENCSR000EFV ChIP-seq EFO:0002067 K562 cell line Homo sapiens MAX-human DNA see document see document False 2012-05-14 ENCODE 633651 ENCODE Consortium Analysis Working Group 13a3c429f910b853f14a8fa2de029ec9 https://www.encodeproject.org/files/ENCFF002CXD/@@download/ENCFF002CXD.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF799HIG bed narrowPeak optimal idr thresholded peaks ENCSR000EFV ChIP-seq EFO:0002067 K562 cell line Homo sapiens MAX-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF087MNA, ENCFF375JMY, ENCFF417GYT 624145 ENCODE Processing Pipeline 1b006f9e5ad27a54abb8329a52edd9d8 https://www.encodeproject.org/files/ENCFF799HIG/@@download/ENCFF799HIG.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample insufficient read depth ENCFF002CWI bed narrowPeak optimal idr thresholded peaks ENCSR000FAG ChIP-seq EFO:0002067 K562 cell line Homo sapiens MYC-human DNA see document see document False 2011-10-29 ENCODE 100566 ENCODE Consortium Analysis Working Group dc7b2f11aa6ce545fdba1c08dc21c233 https://www.encodeproject.org/files/ENCFF002CWI/@@download/ENCFF002CWI.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CPL bed narrowPeak optimal idr thresholded peaks ENCSR000DZW ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RFX5-human DNA see document see document False 2011-10-29 ENCODE 115381 ENCODE Consortium Analysis Working Group c30bfb05229daf605c7b5ef231d2f54c https://www.encodeproject.org/files/ENCFF002CPL/@@download/ENCFF002CPL.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF402FYF bed narrowPeak optimal idr thresholded peaks ENCSR000DZW ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RFX5-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF381NIE, ENCFF628ZZL, ENCFF868UJU 110449 ENCODE Processing Pipeline 811017cf274710fe6aaf8c06d8649580 https://www.encodeproject.org/files/ENCFF402FYF/@@download/ENCFF402FYF.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CLI bed narrowPeak optimal idr thresholded peaks ENCSR000BNT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 380028 ENCODE Consortium Analysis Working Group 15a512ff508f74ddd63211bb308b1fe5 https://www.encodeproject.org/files/ENCFF002CLI/@@download/ENCFF002CLI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient replicate concordance ENCFF420KEV bed narrowPeak optimal idr thresholded peaks ENCSR000BNT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF224GWF, ENCFF387XCG, ENCFF725GND 399156 ENCODE Processing Pipeline 88ed7aa67f32ef173648f7033515b4f7 https://www.encodeproject.org/files/ENCFF420KEV/@@download/ENCFF420KEV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth, insufficient replicate concordance ENCFF002CIY bed narrowPeak optimal idr thresholded peaks ENCSR000BNR ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens HDAC2-human DNA see document see document False 2011-07-18 ENCODE 108431 ENCODE Consortium Analysis Working Group 80752ae1c5310b02450b06c83f3df628 https://www.encodeproject.org/files/ENCFF002CIY/@@download/ENCFF002CIY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF902CVS bed narrowPeak optimal idr thresholded peaks ENCSR000BNR ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens HDAC2-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF159YRA, ENCFF273RCZ, ENCFF536YJT 183886 ENCODE Processing Pipeline 3f3592fa333e52b9cca1baa9811787c8 https://www.encodeproject.org/files/ENCFF902CVS/@@download/ENCFF902CVS.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample ENCFF002DBQ bed narrowPeak optimal idr thresholded peaks ENCSR000DMT ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-03-17 ENCODE 385528 ENCODE Consortium Analysis Working Group fe888d1d6e70c184e86aa558a8956409 https://www.encodeproject.org/files/ENCFF002DBQ/@@download/ENCFF002DBQ.bed.gz hg19 released low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF002COZ bed narrowPeak optimal idr thresholded peaks ENCSR000DZY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFE2-human DNA see document see document False 2011-10-29 ENCODE 21770 ENCODE Consortium Analysis Working Group ce7292661cd93ab37f47d9f30154a57f https://www.encodeproject.org/files/ENCFF002COZ/@@download/ENCFF002COZ.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from control insufficient read depth ENCFF766ERZ bed narrowPeak optimal idr thresholded peaks ENCSR000DZY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens NFE2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF126LPK, ENCFF168WPY, ENCFF955NAK 2372 ENCODE Processing Pipeline 95644ae74fe0934d417696338f134eae https://www.encodeproject.org/files/ENCFF766ERZ/@@download/ENCFF766ERZ.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample control insufficient read depth ENCFF002CDR bed narrowPeak optimal idr thresholded peaks ENCSR000AQK ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CHD1-human DNA see document see document False 2012-03-06 ENCODE 188338 ENCODE Consortium Analysis Working Group 1a3c274382e03b2aa6fb691837895fba https://www.encodeproject.org/files/ENCFF002CDR/@@download/ENCFF002CDR.bed.gz hg19 archived low read length, mild to moderate bottlenecking, inconsistent platforms, mixed read lengths missing derived_from insufficient replicate concordance ENCFF617RGJ bed narrowPeak optimal idr thresholded peaks ENCSR000AQK ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CHD1-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF107CSR, ENCFF975RMA, ENCFF996PWC 168337 ENCODE Processing Pipeline 26d5177bf6655b63dcbaf3942dbc9702 https://www.encodeproject.org/files/ENCFF617RGJ/@@download/ENCFF617RGJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent platforms, mixed read lengths insufficient replicate concordance ENCFF002CRJ bed narrowPeak optimal idr thresholded peaks ENCSR000EBW ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens ZNF143-human DNA see document see document False 2012-05-14 ENCODE 775636 ENCODE Consortium Analysis Working Group 75c727b2ab18086c2d82e11bf53d3266 https://www.encodeproject.org/files/ENCFF002CRJ/@@download/ENCFF002CRJ.bed.gz hg19 archived low read length, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF964BYN bed narrowPeak optimal idr thresholded peaks ENCSR000EBW ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens ZNF143-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF080SVL, ENCFF180SZJ, ENCFF902CAT 639247 ENCODE Processing Pipeline cca4fd168c13d68f7e9751c2a7a43c7c https://www.encodeproject.org/files/ENCFF964BYN/@@download/ENCFF964BYN.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CKZ bed narrowPeak optimal idr thresholded peaks ENCSR000BHU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RXRA-human DNA see document see document False 2011-07-18 ENCODE 378584 ENCODE Consortium Analysis Working Group 664cfd5f0deaa3414bb50c28fe2ec980 https://www.encodeproject.org/files/ENCFF002CKZ/@@download/ENCFF002CKZ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from insufficient replicate concordance missing control alignments ENCFF964JXI bed narrowPeak optimal idr thresholded peaks ENCSR000BHU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens RXRA-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF679VQP, ENCFF915JCV, ENCFF976ZDJ 425321 ENCODE Processing Pipeline d540c903680e4b4ac7aea04e684324a5 https://www.encodeproject.org/files/ENCFF964JXI/@@download/ENCFF964JXI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient replicate concordance missing control alignments ENCFF002DDT bed narrowPeak optimal idr thresholded peaks ENCSR000DYB ChIP-seq EFO:0001260 WI38 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HYH, ENCFF001HYI 641662 ENCODE Consortium Analysis Working Group 290f42297b4c6b46ff5158f43a51da47 https://www.encodeproject.org/files/ENCFF002DDT/@@download/ENCFF002DDT.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking insufficient read depth ENCFF016EUX bed narrowPeak optimal idr thresholded peaks ENCSR000DYB ChIP-seq EFO:0001260 WI38 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF200KQQ, ENCFF381HQF, ENCFF658PRB 489043 ENCODE Processing Pipeline 3b4175ee806d5059eb5007e4fa19891b https://www.encodeproject.org/files/ENCFF016EUX/@@download/ENCFF016EUX.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking insufficient read depth ENCFF002CYB bed narrowPeak optimal idr thresholded peaks ENCSR000FAV ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute STAT1-human DNA see document see document False 2011-10-29 ENCODE 40339 ENCODE Consortium Analysis Working Group 1718fd972f2325347a55591909f5d6da https://www.encodeproject.org/files/ENCFF002CYB/@@download/ENCFF002CYB.bed.gz hg19 archived control low read depth biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length ENCFF290HTJ bed narrowPeak optimal idr thresholded peaks ENCSR000FAV ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute STAT1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF490WRP, ENCFF622FPS, ENCFF695SDJ 25619 ENCODE Processing Pipeline a9aa20b61b6e61db5f4a49be039c6f10 https://www.encodeproject.org/files/ENCFF290HTJ/@@download/ENCFF290HTJ.bed.gz hg19 released control low read depth biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CSU bed narrowPeak optimal idr thresholded peaks ENCSR000DNS ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens NFYA-human DNA see document see document False 2011-10-29 ENCODE 145549 ENCODE Consortium Analysis Working Group 0648b23890a30a1df457a5ccd1b72a85 https://www.encodeproject.org/files/ENCFF002CSU/@@download/ENCFF002CSU.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CYI bed narrowPeak optimal idr thresholded peaks ENCSR000EGA ChIP-seq EFO:0002067 K562 cell line Homo sapiens TBL1XR1-human DNA see document see document False 2012-05-14 ENCODE 132380 ENCODE Consortium Analysis Working Group 7179d23bbb19655b2530129332aab3e8 https://www.encodeproject.org/files/ENCFF002CYI/@@download/ENCFF002CYI.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF048OBR bed narrowPeak optimal idr thresholded peaks ENCSR000EGA ChIP-seq EFO:0002067 K562 cell line Homo sapiens TBL1XR1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF029WBH, ENCFF148FBK, ENCFF570BGF 116170 ENCODE Processing Pipeline af849a8e32cce9ef81c5076327bc52fa https://www.encodeproject.org/files/ENCFF048OBR/@@download/ENCFF048OBR.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CNG bed narrowPeak optimal idr thresholded peaks ENCSR000BQN ChIP-seq EFO:0005234 PFSK-1 cell line Homo sapiens TAF1-human DNA see document see document False 2012-02-29 ENCODE 156824 ENCODE Consortium Analysis Working Group 66da916867df6e09215a4e5813b94fb9 https://www.encodeproject.org/files/ENCFF002CNG/@@download/ENCFF002CNG.bed.gz hg19 archived control low read depth, low read length, borderline replicate concordance missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF070SAY bed narrowPeak optimal idr thresholded peaks ENCSR000BQN ChIP-seq EFO:0005234 PFSK-1 cell line Homo sapiens TAF1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF499YNQ, ENCFF652LUF, ENCFF854IEG 277003 ENCODE Processing Pipeline 1a8073f1f951fdd5f174cb43a8608abf https://www.encodeproject.org/files/ENCFF070SAY/@@download/ENCFF070SAY.bed.gz hg19 released control low read depth, low read length, borderline replicate concordance biological replicates with identical biosample insufficient read depth ENCFF002CQM bed narrowPeak optimal idr thresholded peaks ENCSR000EBG ChIP-seq EFO:0005350 GM19099 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 469278 ENCODE Consortium Analysis Working Group f0e6f91ae1ca71e1c6163fd76dbe92fd https://www.encodeproject.org/files/ENCFF002CQM/@@download/ENCFF002CQM.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CZY bed narrowPeak optimal idr thresholded peaks ENCSR000EXX ChIP-seq EFO:0002324 Raji cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 413835 ENCODE Consortium Analysis Working Group 52ba9a6d81cca9f3df09523d54362d2d https://www.encodeproject.org/files/ENCFF002CZY/@@download/ENCFF002CZY.bed.gz hg19 archived control low read depth, low read length biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF241ZTW bed narrowPeak optimal idr thresholded peaks ENCSR000EXX ChIP-seq EFO:0002324 Raji cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF147JUY, ENCFF442YIG, ENCFF939NXA 510960 ENCODE Processing Pipeline aaa34484f27d12e6052d7b1e515233b8 https://www.encodeproject.org/files/ENCFF241ZTW/@@download/ENCFF241ZTW.bed.gz hg19 released control low read depth, low read length biological replicates with identical biosample insufficient read depth ENCFF002CXO bed narrowPeak optimal idr thresholded peaks ENCSR000EHP ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute POLR2A-human DNA see document see document False 2011-10-29 ENCODE 369857 ENCODE Consortium Analysis Working Group eeb2549b268c9ec76e97ce900cdb85cc https://www.encodeproject.org/files/ENCFF002CXO/@@download/ENCFF002CXO.bed.gz hg19 archived low read depth, mixed read lengths biological replicates with identical biosample, missing derived_from control insufficient read depth, insufficient read depth, insufficient read length ENCFF270QAB bed narrowPeak optimal idr thresholded peaks ENCSR000EHP ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute POLR2A-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF050JYN, ENCFF188QEA, ENCFF278XFP 400425 ENCODE Processing Pipeline 932fe48d98f71d06e962f09468c47775 https://www.encodeproject.org/files/ENCFF270QAB/@@download/ENCFF270QAB.bed.gz hg19 released low read depth, mixed read lengths biological replicates with identical biosample control insufficient read depth, insufficient read depth, insufficient read length ENCFF002DBO bed narrowPeak optimal idr thresholded peaks ENCSR000DMN ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens POLR2A-human DNA see document see document False 2012-08-27 ENCODE 474239 ENCODE Consortium Analysis Working Group ee8f76c66177dfb9f1ea71e4c653892e https://www.encodeproject.org/files/ENCFF002DBO/@@download/ENCFF002DBO.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample missing control alignments ENCFF883LPV bed narrowPeak optimal idr thresholded peaks ENCSR000DMN ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens POLR2A-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF192XNZ, ENCFF763KGX, ENCFF824QGC 473763 ENCODE Processing Pipeline 537bae2fea75ddd83304278c2f3c11e1 https://www.encodeproject.org/files/ENCFF883LPV/@@download/ENCFF883LPV.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample missing control alignments ENCFF002CXA bed narrowPeak optimal idr thresholded peaks ENCSR000EVY ChIP-seq EFO:0002067 K562 cell line Homo sapiens TRIM28-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF000YSI, ENCFF000YSJ 130936 ENCODE Consortium Analysis Working Group 44c383b2a77c0adb37a0898c290fb584 https://www.encodeproject.org/files/ENCFF002CXA/@@download/ENCFF002CXA.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, mixed read lengths inconsistent mapped reads lengths insufficient read depth, insufficient read length ENCFF591BIT bed narrowPeak optimal idr thresholded peaks ENCSR000EVY ChIP-seq EFO:0002067 K562 cell line Homo sapiens TRIM28-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF007QAA, ENCFF401VYC, ENCFF811QWR 109809 ENCODE Processing Pipeline 3cbd8317834ea4a0b339e357c3badbe1 https://www.encodeproject.org/files/ENCFF591BIT/@@download/ENCFF591BIT.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, mixed read lengths inconsistent mapped reads lengths insufficient read depth, insufficient read length ENCFF002CEW bed narrowPeak optimal idr thresholded peaks ENCSR000AOO ChIP-seq CL:0000127 astrocyte primary cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 770760 ENCODE Consortium Analysis Working Group 434e33ec51c578c335d90954e33fb871 https://www.encodeproject.org/files/ENCFF002CEW/@@download/ENCFF002CEW.bed.gz hg19 archived low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity missing derived_from, NTR biosample insufficient read depth ENCFF415WKV bed narrowPeak optimal idr thresholded peaks ENCSR000AOO ChIP-seq CL:0000127 astrocyte primary cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF113DAW, ENCFF527FXX, ENCFF857XBX 576020 ENCODE Processing Pipeline 86f81256e7eb31e31845b1b9a9c45e35 https://www.encodeproject.org/files/ENCFF415WKV/@@download/ENCFF415WKV.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity NTR biosample insufficient read depth ENCFF002DCF bed narrowPeak optimal idr thresholded peaks ENCSR000DQY ChIP-seq EFO:0005353 GM12801 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1 ENCFF001HBB 54731 ENCODE Consortium Analysis Working Group 596392705bd0e7954538494d7f40be01 https://www.encodeproject.org/files/ENCFF002DCF/@@download/ENCFF002DCF.bed.gz hg19 released control low read depth inconsistent mapped reads lengths insufficient read length extremely low read depth ENCFF002CPK bed narrowPeak optimal idr thresholded peaks ENCSR000EAC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RAD21-human DNA see document see document False 2011-10-29 ENCODE 757929 ENCODE Consortium Analysis Working Group 90be6eca516f3df86ba962066a7b0f55 https://www.encodeproject.org/files/ENCFF002CPK/@@download/ENCFF002CPK.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CRX bed narrowPeak optimal idr thresholded peaks ENCSR000DNW ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens BRF1-human DNA see document see document False 2011-10-29 ENCODE 5388 ENCODE Consortium Analysis Working Group 2281830d1b316504434057ff8956cf29 https://www.encodeproject.org/files/ENCFF002CRX/@@download/ENCFF002CRX.bed.gz hg19 released inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CRF bed narrowPeak optimal idr thresholded peaks ENCSR000EBO ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SIN3A-human DNA see document see document False 2012-05-14 ENCODE 546325 ENCODE Consortium Analysis Working Group 5957d48fb5af3c4625e5631698512018 https://www.encodeproject.org/files/ENCFF002CRF/@@download/ENCFF002CRF.bed.gz hg19 archived low read length, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF184HWT bed narrowPeak optimal idr thresholded peaks ENCSR000EBO ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SIN3A-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF284VQZ, ENCFF411CQI, ENCFF492CRC 549850 ENCODE Processing Pipeline 416fbc69abb0ccb5c20ee8a1e8214afc https://www.encodeproject.org/files/ENCFF184HWT/@@download/ENCFF184HWT.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CVB bed narrowPeak optimal idr thresholded peaks ENCSR000EVU ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens FOS-human DNA see document see document False 2011-10-29 ENCODE 940722 ENCODE Consortium Analysis Working Group 5d2acf42ab0bb9a6d813b266c13b2c3a https://www.encodeproject.org/files/ENCFF002CVB/@@download/ENCFF002CVB.bed.gz hg19 archived low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, duplicate lane review, missing derived_from insufficient read depth ENCFF390MXI bed narrowPeak optimal idr thresholded peaks ENCSR000EVU ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens FOS-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF221BNG, ENCFF387HZM, ENCFF587UQZ 768034 ENCODE Processing Pipeline c6480e664f94e84cc9968f1178d9c24b https://www.encodeproject.org/files/ENCFF390MXI/@@download/ENCFF390MXI.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, duplicate lane review insufficient read depth ENCFF002CKJ bed narrowPeak optimal idr thresholded peaks ENCSR000BLE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXA1-human DNA see document see document False 2011-07-18 ENCODE 1014435 ENCODE Consortium Analysis Working Group 615ea488dc54abb647c6e7d6aaa1a14d https://www.encodeproject.org/files/ENCFF002CKJ/@@download/ENCFF002CKJ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF553PWA bed narrowPeak optimal idr thresholded peaks ENCSR000BLE ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens FOXA1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF157CCV, ENCFF169DCU, ENCFF245NLP 926013 ENCODE Processing Pipeline 3400c823c9ffb82c25a3addbaa5fa42a https://www.encodeproject.org/files/ENCFF553PWA/@@download/ENCFF553PWA.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF276MQI bed narrowPeak optimal idr thresholded peaks ENCSR000BIZ ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour ESR1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF451WEI, ENCFF630EHJ, ENCFF775ACP 51885 ENCODE Processing Pipeline 300a8deab5912d00fca9e4eb3e75031a https://www.encodeproject.org/files/ENCFF276MQI/@@download/ENCFF276MQI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth missing control alignments ENCFF002CJS bed narrowPeak optimal idr thresholded peaks ENCSR000BIU ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens USF1-human DNA see document see document False 2011-07-18 ENCODE 507608 ENCODE Consortium Analysis Working Group 5ae1a553c320884a6b9f7f1447a88d93 https://www.encodeproject.org/files/ENCFF002CJS/@@download/ENCFF002CJS.bed.gz hg19 archived low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF358BEF bed narrowPeak optimal idr thresholded peaks ENCSR000BIU ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens USF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF074EWX, ENCFF433NME, ENCFF868HHE 527733 ENCODE Processing Pipeline 3094c785a738fc27832b7fe913c3d950 https://www.encodeproject.org/files/ENCFF358BEF/@@download/ENCFF358BEF.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF002CLK bed narrowPeak optimal idr thresholded peaks ENCSR000BQA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZBTB7A-human DNA see document see document False 2012-02-29 ENCODE 178287 ENCODE Consortium Analysis Working Group a00c93c5360f52a62646332b7f185658 https://www.encodeproject.org/files/ENCFF002CLK/@@download/ENCFF002CLK.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF264LQE bed narrowPeak optimal idr thresholded peaks ENCSR000BQA ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens ZBTB7A-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF525ETQ, ENCFF598OWM, ENCFF973ZCY 225076 ENCODE Processing Pipeline 7ceb1eb4f2ead35aceb6dac50379a772 https://www.encodeproject.org/files/ENCFF264LQE/@@download/ENCFF264LQE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF298QJB bed narrowPeak optimal idr thresholded peaks ENCSR000BTL ChIP-seq EFO:0002793 HL-60 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF154RFF, ENCFF205TFY, ENCFF304QFS 604130 ENCODE Processing Pipeline c5f0f633fc962eb133e299133f0e3ed8 https://www.encodeproject.org/files/ENCFF298QJB/@@download/ENCFF298QJB.bed.gz hg19 released low read depth biological replicates with identical biosample ENCFF002CLP bed narrowPeak optimal idr thresholded peaks ENCSR000BKH ChIP-seq EFO:0002067 K562 cell line Homo sapiens BCLAF1-human DNA see document see document False 2011-07-18 ENCODE 87373 ENCODE Consortium Analysis Working Group 84b23b96b527536feaeb011ecb3ad402 https://www.encodeproject.org/files/ENCFF002CLP/@@download/ENCFF002CLP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, mixed read lengths biological replicates with identical biosample, missing derived_from control insufficient read depth ENCFF203EDM bed narrowPeak optimal idr thresholded peaks ENCSR000BKH ChIP-seq EFO:0002067 K562 cell line Homo sapiens BCLAF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF185HLZ, ENCFF650YKB, ENCFF674BPH 40925 ENCODE Processing Pipeline 3946dde3684d502243421593940f2481 https://www.encodeproject.org/files/ENCFF203EDM/@@download/ENCFF203EDM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, mixed read lengths biological replicates with identical biosample control insufficient read depth ENCFF002CRY bed narrowPeak optimal idr thresholded peaks ENCSR000DNV ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens BRF2-human DNA see document see document False 2011-10-29 ENCODE 8295 ENCODE Consortium Analysis Working Group 9398a1a6df6864705eb7fae3e09199ef https://www.encodeproject.org/files/ENCFF002CRY/@@download/ENCFF002CRY.bed.gz hg19 released inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read length ENCFF772QPO bed narrowPeak optimal idr thresholded peaks ENCSR086FZL ChIP-seq EFO:0002067 K562 cell line Homo sapiens KAT8-human DNA False 2016-09-01 ENCODE 1, 2 ENCFF001TDO, ENCFF023FAR, ENCFF671OTI, ENCFF763LNG 44388 ENCODE Processing Pipeline d43ee2f381e8065adaf48e7520a7473a https://www.encodeproject.org/files/ENCFF772QPO/@@download/ENCFF772QPO.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth ENCFF002CXR bed narrowPeak optimal idr thresholded peaks ENCSR000FAJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 372941 ENCODE Consortium Analysis Working Group c05fd64032c0e77d1958bafa8ecad68b https://www.encodeproject.org/files/ENCFF002CXR/@@download/ENCFF002CXR.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CPQ bed narrowPeak optimal idr thresholded peaks ENCSR000DYZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TBL1XR1-human DNA see document see document False 2012-05-14 ENCODE 354983 ENCODE Consortium Analysis Working Group f532c9aab1abb230ed38c56d14833c17 https://www.encodeproject.org/files/ENCFF002CPQ/@@download/ENCFF002CPQ.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF957YRU bed narrowPeak optimal idr thresholded peaks ENCSR000DYZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TBL1XR1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF453YFD, ENCFF630PWI, ENCFF941AZB 297607 ENCODE Processing Pipeline 5e70a5136c41813c1a7f9b17b00685f4 https://www.encodeproject.org/files/ENCFF957YRU/@@download/ENCFF957YRU.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CEU bed narrowPeak optimal idr thresholded peaks ENCSR000AQI ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBBP5-human DNA see document see document False 2012-03-06 ENCODE 316070 ENCODE Consortium Analysis Working Group 281c4ee8e2b9fc087b8c64b15fb8dcd9 https://www.encodeproject.org/files/ENCFF002CEU/@@download/ENCFF002CEU.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample, missing derived_from, missing raw data in replicate insufficient read depth, poor library complexity, severe bottlenecking ENCFF379MPS bed narrowPeak optimal idr thresholded peaks ENCSR000AQI ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBBP5-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF058DJL, ENCFF528ISK, ENCFF617FLM 443533 ENCODE Processing Pipeline afdb5fc3b65ee21fff5b7c97fe28142f https://www.encodeproject.org/files/ENCFF379MPS/@@download/ENCFF379MPS.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample, missing raw data in replicate insufficient read depth, poor library complexity, severe bottlenecking ENCFF002CYE bed narrowPeak optimal idr thresholded peaks ENCSR000EHJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour STAT1-human DNA see document see document False 2011-10-29 ENCODE 48537 ENCODE Consortium Analysis Working Group 199b233a57914bd4ff8cd80e03ae96bc https://www.encodeproject.org/files/ENCFF002CYE/@@download/ENCFF002CYE.bed.gz hg19 archived control low read depth, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF648NYF bed narrowPeak optimal idr thresholded peaks ENCSR000EHJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour STAT1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF473ULH, ENCFF797EKN, ENCFF947WYS 49746 ENCODE Processing Pipeline 2a8c734f74b99e36c8be46d2216ac62e https://www.encodeproject.org/files/ENCFF648NYF/@@download/ENCFF648NYF.bed.gz hg19 released control low read depth, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CRC bed narrowPeak optimal idr thresholded peaks ENCSR000ECC ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens NRF1-human DNA see document see document False 2011-10-29 ENCODE 113020 ENCODE Consortium Analysis Working Group ac25b5be53b26c71dbb7393b82bc891f https://www.encodeproject.org/files/ENCFF002CRC/@@download/ENCFF002CRC.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF508IBP bed narrowPeak optimal idr thresholded peaks ENCSR000ECC ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens NRF1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF392HAM, ENCFF547PLM, ENCFF987TTM 87681 ENCODE Processing Pipeline 665542539f7b759c7b820632d8d8d8c3 https://www.encodeproject.org/files/ENCFF508IBP/@@download/ENCFF508IBP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CFE bed narrowPeak optimal idr thresholded peaks ENCSR000ARO ChIP-seq CL:0002553 fibroblast of lung primary cell Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 171761 ENCODE Consortium Analysis Working Group c280543eeeb49fdd89d338ca4605ba20 https://www.encodeproject.org/files/ENCFF002CFE/@@download/ENCFF002CFE.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking missing derived_from missing control alignments ENCFF772XQF bed narrowPeak optimal idr thresholded peaks ENCSR000ARO ChIP-seq CL:0002553 fibroblast of lung primary cell Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF013CEU, ENCFF306KIF, ENCFF379HMO 243525 ENCODE Processing Pipeline e318abb26c13b0c4841f1a0da0747386 https://www.encodeproject.org/files/ENCFF772XQF/@@download/ENCFF772XQF.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking missing control alignments ENCFF689AXJ bed narrowPeak optimal idr thresholded peaks ENCSR000DYV ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MAFK-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF122PLB, ENCFF156VOX, ENCFF226PAC 121444 ENCODE Processing Pipeline b61b43061a198f6f74206eee7d7b8e4a https://www.encodeproject.org/files/ENCFF689AXJ/@@download/ENCFF689AXJ.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, inconsistent mapped reads lengths ENCFF134XDY bed narrowPeak optimal idr thresholded peaks ENCSR251OVJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SMAD5-human DNA False 2016-02-02 ENCODE 1, 2 ENCFF001TDO, ENCFF045XQS, ENCFF502RRE, ENCFF895ECZ 206496 ENCODE Processing Pipeline d8344e811dbec6f17020acdb4a272fc5 https://www.encodeproject.org/files/ENCFF134XDY/@@download/ENCFF134XDY.bed.gz hg19 released low read depth, antibody characterized with exemption ENCFF711TMS bed narrowPeak optimal idr thresholded peaks ENCSR251OVJ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SMAD5-human DNA False 2016-02-02 ENCODE 1, 2 ENCFF001TDO, ENCFF413GIF, ENCFF553HHF, ENCFF794YQY 173931 ENCODE Processing Pipeline ab21595564b935d834567abac5d3a9c9 https://www.encodeproject.org/files/ENCFF711TMS/@@download/ENCFF711TMS.bed.gz hg19 archived low read depth, antibody characterized with exemption ENCFF677OWM bed narrowPeak optimal idr thresholded peaks ENCSR996ESX ChIP-seq EFO:0002067 K562 cell line Homo sapiens NFRKB-human DNA False 2018-01-26 ENCODE 1, 2 ENCFF001TDO, ENCFF139EAR, ENCFF630SOG, ENCFF648NVD 149805 ENCODE Processing Pipeline a3af5e542702471717992287eaae5b71 https://www.encodeproject.org/files/ENCFF677OWM/@@download/ENCFF677OWM.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO partially characterized antibody ENCFF002CXN bed narrowPeak optimal idr thresholded peaks ENCSR000FAX ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour POLR2A-human DNA see document see document False 2011-10-29 ENCODE 271627 ENCODE Consortium Analysis Working Group 2e251f0a3e82ac18e6e3da60a5ce00f8 https://www.encodeproject.org/files/ENCFF002CXN/@@download/ENCFF002CXN.bed.gz hg19 archived control low read depth, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF206YXX bed narrowPeak optimal idr thresholded peaks ENCSR000FAX ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 6.0 hour POLR2A-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF195EME, ENCFF196LRG, ENCFF274EWP 326220 ENCODE Processing Pipeline c00b821c15db119f2de9065176aee084 https://www.encodeproject.org/files/ENCFF206YXX/@@download/ENCFF206YXX.bed.gz hg19 released control low read depth, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CLL bed narrowPeak optimal idr thresholded peaks ENCSR000BQC ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 627799 ENCODE Consortium Analysis Working Group 7e637039254599be3cfce759110c8d8d https://www.encodeproject.org/files/ENCFF002CLL/@@download/ENCFF002CLL.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF423WPT bed narrowPeak optimal idr thresholded peaks ENCSR000BQC ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF003WNJ, ENCFF129JER, ENCFF821DBG 694495 ENCODE Processing Pipeline 85ab5f98abfeec0e40ef95c94ad9bf20 https://www.encodeproject.org/files/ENCFF423WPT/@@download/ENCFF423WPT.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF034GYQ bed narrowPeak optimal idr thresholded peaks ENCSR618HNF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens TRIM28-human DNA see document see document False 2017-06-01 ENCODE 1, 2 ENCFF001TDO, ENCFF231INW, ENCFF268OOC, ENCFF476SFW 371737 ENCODE Processing Pipeline 8b9e6ee0dc3459ed79f4f84c71ed9dbc https://www.encodeproject.org/files/ENCFF034GYQ/@@download/ENCFF034GYQ.bed.gz hg19 released mild to moderate bottlenecking, low read depth experiment not submitted to GEO insufficient read length ENCFF034JLC bed narrowPeak optimal idr thresholded peaks ENCSR618HNF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens TRIM28-human DNA see document see document False 2017-06-01 ENCODE 1, 2 ENCFF001TDO, ENCFF395ELT, ENCFF499LYC, ENCFF631KGG 381178 ENCODE Processing Pipeline e2986ba530a02c08b8a4ee7f1adf7415 https://www.encodeproject.org/files/ENCFF034JLC/@@download/ENCFF034JLC.bed.gz hg19 archived mild to moderate bottlenecking, low read depth experiment not submitted to GEO insufficient read length ENCFF002DAB bed narrowPeak optimal idr thresholded peaks ENCSR618HNF ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens TRIM28-human DNA see document see document False 2017-06-01 ENCODE 1, 2 ENCFF000ZTD, ENCFF000ZTF 359152 ENCODE Consortium Analysis Working Group 43eb6e30af14c587f54ac14230074fb6 https://www.encodeproject.org/files/ENCFF002DAB/@@download/ENCFF002DAB.bed.gz hg19 archived mild to moderate bottlenecking, low read depth experiment not submitted to GEO insufficient read length ENCFF002DAY bed narrowPeak optimal idr thresholded peaks ENCSR000DLQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-03-17 ENCODE 297297 ENCODE Consortium Analysis Working Group 3deff97587dc49a10018a337bc0b0b19 https://www.encodeproject.org/files/ENCFF002DAY/@@download/ENCFF002DAY.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CLY bed narrowPeak optimal idr thresholded peaks ENCSR000BMV ChIP-seq EFO:0002067 K562 cell line Homo sapiens FOSL1-human DNA see document see document False 2011-07-18 ENCODE 224220 ENCODE Consortium Analysis Working Group 542fee5cc2b0c4d57b8021a3254e21f6 https://www.encodeproject.org/files/ENCFF002CLY/@@download/ENCFF002CLY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample control insufficient read depth ENCFF473GCH bed narrowPeak optimal idr thresholded peaks ENCSR000BMV ChIP-seq EFO:0002067 K562 cell line Homo sapiens FOSL1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF400JWL, ENCFF753OLX, ENCFF818IMH 133495 ENCODE Processing Pipeline 86ddcb80bb8c5f873e909777fd5562ce https://www.encodeproject.org/files/ENCFF473GCH/@@download/ENCFF473GCH.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample control insufficient read depth ENCFF002DBB bed narrowPeak optimal idr thresholded peaks ENCSR000DLV ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens POLR2A-human DNA see document see document False 2011-03-17 ENCODE 357266 ENCODE Consortium Analysis Working Group 52215da55c7d013c6905e23a364ec1f6 https://www.encodeproject.org/files/ENCFF002DBB/@@download/ENCFF002DBB.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth, poor library complexity, severe bottlenecking, insufficient read length extremely low read depth ENCFF002CUC bed narrowPeak optimal idr thresholded peaks ENCSR000EEU ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens forskolin and pyruvate 6.0 hour HNF4A-human DNA see document see document False 2011-10-29 ENCODE 213158 ENCODE Consortium Analysis Working Group 006988cb6eb478daf34722128c086ab7 https://www.encodeproject.org/files/ENCFF002CUC/@@download/ENCFF002CUC.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF294NNX bed narrowPeak optimal idr thresholded peaks ENCSR878DES ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens eGFP-ZNF624-human DNA formaldehyde False 2017-04-06 ENCODE 1, 2 ENCFF001TDO, ENCFF193TEJ, ENCFF421XJF, ENCFF840UUG 37665 ENCODE Processing Pipeline 90946b29583266562505804ea51d9440 https://www.encodeproject.org/files/ENCFF294NNX/@@download/ENCFF294NNX.bed.gz hg19 released missing genetic modification characterization missing control alignments ENCFF002COL bed narrowPeak optimal idr thresholded peaks ENCSR000DZS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BRCA1-human DNA see document see document False 2011-10-29 ENCODE 14118 ENCODE Consortium Analysis Working Group 9244c35a76113602e7ca61ee915f9e18 https://www.encodeproject.org/files/ENCFF002COL/@@download/ENCFF002COL.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample insufficient replicate concordance ENCFF082JDH bed narrowPeak optimal idr thresholded peaks ENCSR000DZS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens BRCA1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF093WNM, ENCFF106CWI, ENCFF443VLF 31791 ENCODE Processing Pipeline 10299328af6a1ef178cd4a17a91c4c3e https://www.encodeproject.org/files/ENCFF082JDH/@@download/ENCFF082JDH.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample insufficient replicate concordance ENCFF002CWG bed narrowPeak optimal idr thresholded peaks ENCSR000EZU ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour MYC-human DNA see document see document False 2011-10-29 ENCODE 401062 ENCODE Consortium Analysis Working Group d5ec7ee4fc4ed19db3b6d72ce1341cdd https://www.encodeproject.org/files/ENCFF002CWG/@@download/ENCFF002CWG.bed.gz hg19 archived control low read depth, borderline replicate concordance, mixed read lengths biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length ENCFF099SDW bed narrowPeak optimal idr thresholded peaks ENCSR000EZU ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour MYC-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF162CMX, ENCFF934ENB, ENCFF987HSI 365512 ENCODE Processing Pipeline a5ea998d3571ba34457f33fe6da76db2 https://www.encodeproject.org/files/ENCFF099SDW/@@download/ENCFF099SDW.bed.gz hg19 released control low read depth, borderline replicate concordance, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002DCN bed narrowPeak optimal idr thresholded peaks ENCSR000DSZ ChIP-seq CL:0002603 astrocyte of the cerebellum primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HIL, ENCFF001HIM 1041973 ENCODE Consortium Analysis Working Group 6f6e5bd28de13ea3f263d372708f7a6d https://www.encodeproject.org/files/ENCFF002DCN/@@download/ENCFF002DCN.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity insufficient read depth missing control alignments ENCFF660HHS bed narrowPeak optimal idr thresholded peaks ENCSR000DSZ ChIP-seq CL:0002603 astrocyte of the cerebellum primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF542XFE, ENCFF724RQI, ENCFF897VMF 765621 ENCODE Processing Pipeline 4c00b542348b145ccdfb55fee6c12ab9 https://www.encodeproject.org/files/ENCFF660HHS/@@download/ENCFF660HHS.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity insufficient read depth missing control alignments ENCFF002CVH bed narrowPeak optimal idr thresholded peaks ENCSR000EFI ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens CTCF-human DNA see document see document False 2012-05-14 ENCODE 1000229 ENCODE Consortium Analysis Working Group 2ef1d56d5777c1eec6dc2433a3cfb1ba https://www.encodeproject.org/files/ENCFF002CVH/@@download/ENCFF002CVH.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from missing control alignments ENCFF453XKM bed narrowPeak optimal idr thresholded peaks ENCSR000EFI ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens CTCF-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF070OIO, ENCFF598QPN, ENCFF719YRP 749002 ENCODE Processing Pipeline 7012df7b06605f9a5fb69695e1a4178e https://www.encodeproject.org/files/ENCFF453XKM/@@download/ENCFF453XKM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample missing control alignments ENCFF336HCY bed narrowPeak optimal idr thresholded peaks ENCSR000ATS ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SUZ12-human DNA see document see document False 2012-08-06 ENCODE 1, 3 ENCFF001TDO, ENCFF371ZTN, ENCFF588OJE, ENCFF907MBG 339267 ENCODE Processing Pipeline 8fce81d8aa02bb6084375e79f029bba9 https://www.encodeproject.org/files/ENCFF336HCY/@@download/ENCFF336HCY.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent platforms, mixed read lengths, moderate library complexity inconsistent mapped reads lengths ENCFF002DDM bed narrowPeak optimal idr thresholded peaks ENCSR000DWQ ChIP-seq CL:1001608 foreskin fibroblast primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HUP, ENCFF001HUQ 955296 ENCODE Consortium Analysis Working Group bf6c3602c84abce53f0b5d69f870ce34 https://www.encodeproject.org/files/ENCFF002DDM/@@download/ENCFF002DDM.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing control alignments ENCFF337WIE bed narrowPeak optimal idr thresholded peaks ENCSR000DWQ ChIP-seq CL:1001608 foreskin fibroblast primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF290QTC, ENCFF683BND, ENCFF947TJH 782984 ENCODE Processing Pipeline b3d90d4e894ae83cd81c99c55fc84db1 https://www.encodeproject.org/files/ENCFF337WIE/@@download/ENCFF337WIE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth missing control alignments ENCFF002CXW bed narrowPeak optimal idr thresholded peaks ENCSR000DOI ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR3A-human DNA see document see document False 2011-10-29 ENCODE 30224 ENCODE Consortium Analysis Working Group 9d13b60b0b83cf1043c1fa5e719e66a5 https://www.encodeproject.org/files/ENCFF002CXW/@@download/ENCFF002CXW.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002DDI bed narrowPeak optimal idr thresholded peaks ENCSR000DVQ ChIP-seq CL:0002558 fibroblast of villous mesenchyme primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HSM, ENCFF001HSO 911539 ENCODE Consortium Analysis Working Group d5a6de4ca1948023ffb73da452400ed2 https://www.encodeproject.org/files/ENCFF002DDI/@@download/ENCFF002DDI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth insufficient read depth ENCFF738CXX bed narrowPeak optimal idr thresholded peaks ENCSR000DVQ ChIP-seq CL:0002558 fibroblast of villous mesenchyme primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF232MQQ, ENCFF569PZS, ENCFF883QKB 768494 ENCODE Processing Pipeline 5a3c9d8e93fc9918892fa2f3ecf1426a https://www.encodeproject.org/files/ENCFF738CXX/@@download/ENCFF738CXX.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth insufficient read depth ENCFF002CMC bed narrowPeak optimal idr thresholded peaks ENCSR000BLP ChIP-seq EFO:0002067 K562 cell line Homo sapiens MAX-human DNA see document see document False 2011-07-18 ENCODE 1187908 ENCODE Consortium Analysis Working Group ad3cebc9cc63d00128334a3f1539e7af https://www.encodeproject.org/files/ENCFF002CMC/@@download/ENCFF002CMC.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth biological replicates with identical biosample, missing derived_from ENCFF422NGZ bed narrowPeak optimal idr thresholded peaks ENCSR000BLP ChIP-seq EFO:0002067 K562 cell line Homo sapiens MAX-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF280XEL, ENCFF609KEQ, ENCFF922CBN 1024235 ENCODE Processing Pipeline 747de7bd157b52cb8b23dbf18917e54a https://www.encodeproject.org/files/ENCFF422NGZ/@@download/ENCFF422NGZ.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth biological replicates with identical biosample ENCFF002CHB bed narrowPeak optimal idr thresholded peaks ENCSR000BGY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IRF4-human DNA see document see document False 2011-07-18 ENCODE 358811 ENCODE Consortium Analysis Working Group 9e2708daf73a8a5e361e6ef88e8bb464 https://www.encodeproject.org/files/ENCFF002CHB/@@download/ENCFF002CHB.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF391DVL bed narrowPeak optimal idr thresholded peaks ENCSR000BGY ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens IRF4-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF379LXD, ENCFF713DPM, ENCFF947MLS 370386 ENCODE Processing Pipeline 0a0c836f56faf01dc5a94b69720edee9 https://www.encodeproject.org/files/ENCFF391DVL/@@download/ENCFF391DVL.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF002CSA bed narrowPeak optimal idr thresholded peaks ENCSR000EDA ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens CEBPB-human DNA see document see document False 2011-10-29 ENCODE 1284848 ENCODE Consortium Analysis Working Group f85716cb7fe3fda2d73d895e930e47c2 https://www.encodeproject.org/files/ENCFF002CSA/@@download/ENCFF002CSA.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CKN bed narrowPeak optimal idr thresholded peaks ENCSR000BLF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNF4A-human DNA see document see document False 2011-07-18 ENCODE 407127 ENCODE Consortium Analysis Working Group a3fd51799799bc21f0c372816af6bda5 https://www.encodeproject.org/files/ENCFF002CKN/@@download/ENCFF002CKN.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF884JKW bed narrowPeak optimal idr thresholded peaks ENCSR000BLF ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens HNF4A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF167THE, ENCFF176XYE, ENCFF277KXQ 382258 ENCODE Processing Pipeline b34f82ba92cb34b320e67f0328816c72 https://www.encodeproject.org/files/ENCFF884JKW/@@download/ENCFF884JKW.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF782GWS bed narrowPeak optimal idr thresholded peaks ENCSR899GSH ChIP-seq EFO:0002067 K562 cell line Homo sapiens RBM34-human DNA SDS formaldehyde False 2018-01-19 ENCODE 1, 2 ENCFF001TDO, ENCFF144QTJ, ENCFF686LNT, ENCFF934BOE 21299 ENCODE Processing Pipeline af80c3dcb4598e6120e3793fd0d10b3c https://www.encodeproject.org/files/ENCFF782GWS/@@download/ENCFF782GWS.bed.gz hg19 released low read length, borderline replicate concordance experiment not submitted to GEO insufficient read depth ENCFF030QEM bed narrowPeak optimal idr thresholded peaks ENCSR000DJW ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-NR4A1-human DNA see document see document False 2011-06-03 ENCODE 1, 2 ENCFF001TDO, ENCFF368NGK, ENCFF585FBZ, ENCFF771WFB 18193 ENCODE Processing Pipeline 14a3d6885148fb51f43bf238a190ef3c https://www.encodeproject.org/files/ENCFF030QEM/@@download/ENCFF030QEM.bed.gz hg19 released low read length, low read depth, missing genetic modification characterization insufficient replicate concordance ENCFF002CTB bed narrowPeak optimal idr thresholded peaks ENCSR000EDE ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens RAD21-human DNA see document see document False 2011-10-29 ENCODE 946544 ENCODE Consortium Analysis Working Group 11cdf5ce154b89532bb688f47985f9e2 https://www.encodeproject.org/files/ENCFF002CTB/@@download/ENCFF002CTB.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from ENCFF002CQI bed narrowPeak optimal idr thresholded peaks ENCSR000EAY ChIP-seq EFO:0005348 GM18526 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 350465 ENCODE Consortium Analysis Working Group 91d3a4b0a2a95307f816f0dbb2cb70a9 https://www.encodeproject.org/files/ENCFF002CQI/@@download/ENCFF002CQI.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CWD bed narrowPeak optimal idr thresholded peaks ENCSR000FAZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute MYC-human DNA see document see document False 2011-10-29 ENCODE 174210 ENCODE Consortium Analysis Working Group f2e6a896ed9f1597694b779de3fa7a23 https://www.encodeproject.org/files/ENCFF002CWD/@@download/ENCFF002CWD.bed.gz hg19 archived control low read depth, borderline replicate concordance biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length ENCFF634AYU bed narrowPeak optimal idr thresholded peaks ENCSR000FAZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon alpha 30.0 minute MYC-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF517GFP, ENCFF726YHM, ENCFF761YWV 156795 ENCODE Processing Pipeline 730d1f4239612dda93845a2c03f5db0d https://www.encodeproject.org/files/ENCFF634AYU/@@download/ENCFF634AYU.bed.gz hg19 released control low read depth, borderline replicate concordance biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CSM bed narrowPeak optimal idr thresholded peaks ENCSR000EVM ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens HA-E2F1-human DNA see document see document False 2011-10-29 ENCODE 246331 ENCODE Consortium Analysis Working Group 864ab74ed79ccb5bc75f7c1d9492a8fc https://www.encodeproject.org/files/ENCFF002CSM/@@download/ENCFF002CSM.bed.gz hg19 released missing genetic modification characterization, inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CWB bed narrowPeak optimal idr thresholded peaks ENCSR000EZW ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour JUN-human DNA see document see document False 2011-10-29 ENCODE 159843 ENCODE Consortium Analysis Working Group 434c22a477db41bc83f31dc6197c638d https://www.encodeproject.org/files/ENCFF002CWB/@@download/ENCFF002CWB.bed.gz hg19 archived control low read depth, borderline replicate concordance, mixed read lengths biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length ENCFF192BTP bed narrowPeak optimal idr thresholded peaks ENCSR000EZW ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 6.0 hour JUN-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF052OWI, ENCFF394RSM, ENCFF436KCV 111175 ENCODE Processing Pipeline f6d9722fc246ece97dc02a364d78a156 https://www.encodeproject.org/files/ENCFF192BTP/@@download/ENCFF192BTP.bed.gz hg19 released control low read depth, borderline replicate concordance, mixed read lengths biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CND bed narrowPeak optimal idr thresholded peaks ENCSR000BGA ChIP-seq EFO:0005234 PFSK-1 cell line Homo sapiens FOXP2-human DNA see document see document False 2011-07-18 ENCODE 378426 ENCODE Consortium Analysis Working Group c51728b87f0d1f605b9000138b0da558 https://www.encodeproject.org/files/ENCFF002CND/@@download/ENCFF002CND.bed.gz hg19 archived control low read depth, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample, missing derived_from insufficient read depth extremely low read depth, extremely low read length ENCFF395BZZ bed narrowPeak optimal idr thresholded peaks ENCSR000BGA ChIP-seq EFO:0005234 PFSK-1 cell line Homo sapiens FOXP2-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF229DJA, ENCFF882KTD, ENCFF943NWC 302567 ENCODE Processing Pipeline 4e19b95df0695a93ba3dc403d0d64995 https://www.encodeproject.org/files/ENCFF395BZZ/@@download/ENCFF395BZZ.bed.gz hg19 released control low read depth, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample insufficient read depth extremely low read depth, extremely low read length ENCFF558DSF bed narrowPeak optimal idr thresholded peaks ENCSR757IIU ChIP-seq EFO:0002067 K562 cell line Homo sapiens HMBOX1-human DNA False 2016-03-30 ENCODE 1, 2 ENCFF001TDO, ENCFF037FVZ, ENCFF052IOC, ENCFF514IDT 507490 ENCODE Processing Pipeline 082127ee84bc475cf8b8969343b39cd0 https://www.encodeproject.org/files/ENCFF558DSF/@@download/ENCFF558DSF.bed.gz hg19 released moderate library complexity severe bottlenecking ENCFF002CFZ bed narrowPeak optimal idr thresholded peaks ENCSR000BRL ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour SIX5-human DNA see document see document False 2012-02-29 ENCODE 122023 ENCODE Consortium Analysis Working Group b22ea9d58598b742790c5b6682dda181 https://www.encodeproject.org/files/ENCFF002CFZ/@@download/ENCFF002CFZ.bed.gz hg19 archived low read length biological replicates with identical biosample, missing derived_from ENCFF165AUR bed narrowPeak optimal idr thresholded peaks ENCSR000BRL ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour SIX5-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF026LZC, ENCFF838ZHL, ENCFF974EOM 148829 ENCODE Processing Pipeline dcc0af113feb3c7e0cd87e3e67db6c1c https://www.encodeproject.org/files/ENCFF165AUR/@@download/ENCFF165AUR.bed.gz hg19 released low read length biological replicates with identical biosample ENCFF002CIF bed narrowPeak optimal idr thresholded peaks ENCSR000BJH ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens PAX5-human DNA see document see document False 2011-07-18 ENCODE 63039 ENCODE Consortium Analysis Working Group 81219a9230097e295755a9b648cb2a5e https://www.encodeproject.org/files/ENCFF002CIF/@@download/ENCFF002CIF.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth, severe bottlenecking ENCFF067QUU bed narrowPeak optimal idr thresholded peaks ENCSR000BJH ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens PAX5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF385UJM, ENCFF493TPH, ENCFF801IRZ 113118 ENCODE Processing Pipeline 5dad41b367e9fb1f040fcd4a384e1dd0 https://www.encodeproject.org/files/ENCFF067QUU/@@download/ENCFF067QUU.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read depth, severe bottlenecking ENCFF002DDK bed narrowPeak optimal idr thresholded peaks ENCSR000DWH ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HTS, ENCFF001HTX 1232023 ENCODE Consortium Analysis Working Group 8a958f1902ed72574b7f49af0d9af347 https://www.encodeproject.org/files/ENCFF002DDK/@@download/ENCFF002DDK.bed.gz hg19 archived low read length, low read depth ENCFF414FWV bed narrowPeak optimal idr thresholded peaks ENCSR000DWH ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF051RIN, ENCFF095BZW, ENCFF645FWE 998849 ENCODE Processing Pipeline d10b4180a11b1153c93ac953d9ea5b6e https://www.encodeproject.org/files/ENCFF414FWV/@@download/ENCFF414FWV.bed.gz hg19 released low read length, low read depth ENCFF002CGH bed narrowPeak optimal idr thresholded peaks ENCSR000BQE ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour CTCF-human DNA see document see document False 2012-02-29 ENCODE 503330 ENCODE Consortium Analysis Working Group dada712ff792fceffd9d90d3fe249d2d https://www.encodeproject.org/files/ENCFF002CGH/@@download/ENCFF002CGH.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF296XCF bed narrowPeak optimal idr thresholded peaks ENCSR000BQE ChIP-seq EFO:0005718 Ishikawa cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour CTCF-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF305MUT, ENCFF542MFI, ENCFF598COF 383004 ENCODE Processing Pipeline c426eb3fba59c258c551f1b9197e8079 https://www.encodeproject.org/files/ENCFF296XCF/@@download/ENCFF296XCF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002CYD bed narrowPeak optimal idr thresholded peaks ENCSR000EHK ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute STAT1-human DNA see document see document False 2011-10-29 ENCODE 54441 ENCODE Consortium Analysis Working Group e8bdf374770a425d884ec74e902338b6 https://www.encodeproject.org/files/ENCFF002CYD/@@download/ENCFF002CYD.bed.gz hg19 archived mixed read lengths missing derived_from, biological replicates with identical biosample control insufficient read depth, insufficient read depth, insufficient replicate concordance, insufficient read length ENCFF498DOQ bed narrowPeak optimal idr thresholded peaks ENCSR000EHK ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute STAT1-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF585NXD, ENCFF763YXP, ENCFF956SIV 18040 ENCODE Processing Pipeline cabac0bdd4bc42dfea03b1f763d569c8 https://www.encodeproject.org/files/ENCFF498DOQ/@@download/ENCFF498DOQ.bed.gz hg19 released mixed read lengths biological replicates with identical biosample control insufficient read depth, insufficient read depth, insufficient replicate concordance, insufficient read length ENCFF654YPN bed narrowPeak optimal idr thresholded peaks ENCSR584GHV ChIP-seq EFO:0001086 A549 cell line Homo sapiens NFE2L2-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF314DTI, ENCFF332PXJ, ENCFF767PWR 137730 ENCODE Processing Pipeline a6c4c723a4a6672ad59f6ac26c2b0c25 https://www.encodeproject.org/files/ENCFF654YPN/@@download/ENCFF654YPN.bed.gz hg19 released low read length, borderline replicate concordance ENCFF057MON bed narrowPeak optimal idr thresholded peaks ENCSR487CPI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens 3xFLAG-ZFP64-human DNA False 2016-11-08 ENCODE 1, 2 ENCFF001TDO, ENCFF257NTY, ENCFF827WKX, ENCFF922DWF 165137 ENCODE Processing Pipeline c9f063add4945005f635fff52fb8f507 https://www.encodeproject.org/files/ENCFF057MON/@@download/ENCFF057MON.bed.gz hg19 released missing genetic modification characterization characterization(s) pending review missing control alignments ENCFF002CQY bed narrowPeak optimal idr thresholded peaks ENCSR000EBZ ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens JUND-human DNA see document see document False 2011-10-29 ENCODE 244022 ENCODE Consortium Analysis Working Group 525cce1f671f1810aa1c48d2f85a2d6a https://www.encodeproject.org/files/ENCFF002CQY/@@download/ENCFF002CQY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF760AQQ bed narrowPeak optimal idr thresholded peaks ENCSR000EBZ ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens JUND-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF065SXF, ENCFF162PXN, ENCFF338SNH 233544 ENCODE Processing Pipeline 66b5655b705d61f43eef9a3327e5df2b https://www.encodeproject.org/files/ENCFF760AQQ/@@download/ENCFF760AQQ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CWA bed narrowPeak optimal idr thresholded peaks ENCSR000EZT ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute JUN-human DNA see document see document False 2011-10-29 ENCODE 183099 ENCODE Consortium Analysis Working Group 51f6da08d5b1a787ae904ac0bc01e2bc https://www.encodeproject.org/files/ENCFF002CWA/@@download/ENCFF002CWA.bed.gz hg19 archived mild to moderate bottlenecking, mixed read lengths missing derived_from, biological replicates with identical biosample control insufficient read depth, insufficient read depth, insufficient read length ENCFF417QAJ bed narrowPeak optimal idr thresholded peaks ENCSR000EZT ChIP-seq EFO:0002067 K562 cell line Homo sapiens interferon gamma 30.0 minute JUN-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF076VIZ, ENCFF646NDI, ENCFF711IWR 149199 ENCODE Processing Pipeline 238b9e00469f275659c398777dc0f553 https://www.encodeproject.org/files/ENCFF417QAJ/@@download/ENCFF417QAJ.bed.gz hg19 released mild to moderate bottlenecking, mixed read lengths biological replicates with identical biosample control insufficient read depth, insufficient read depth, insufficient read length ENCFF002CJB bed narrowPeak optimal idr thresholded peaks ENCSR000BHM ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 272383 ENCODE Consortium Analysis Working Group fd8f0f6b21e19fa1c186d9de059c1d27 https://www.encodeproject.org/files/ENCFF002CJB/@@download/ENCFF002CJB.bed.gz hg19 archived low read length, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF453HPD bed narrowPeak optimal idr thresholded peaks ENCSR000BHM ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF116MTZ, ENCFF719OMW, ENCFF935KIG 278409 ENCODE Processing Pipeline 07f8d6d12ffe4b5d81a0bfda84ea298d https://www.encodeproject.org/files/ENCFF453HPD/@@download/ENCFF453HPD.bed.gz hg19 released low read length, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CKP bed narrowPeak optimal idr thresholded peaks ENCSR000BGK ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens JUND-human DNA see document see document False 2011-07-18 ENCODE 417508 ENCODE Consortium Analysis Working Group 3f5847a857c4581b0a6eee63d611118d https://www.encodeproject.org/files/ENCFF002CKP/@@download/ENCFF002CKP.bed.gz hg19 archived control low read depth, low read length, low read depth, borderline replicate concordance biological replicates with identical biosample, missing derived_from missing control alignments ENCFF721HUX bed narrowPeak optimal idr thresholded peaks ENCSR000BGK ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens JUND-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF265CMT, ENCFF323HOG, ENCFF953YCY 480792 ENCODE Processing Pipeline 52a019c14919da9374985ab812f42e9d https://www.encodeproject.org/files/ENCFF721HUX/@@download/ENCFF721HUX.bed.gz hg19 released control low read depth, low read length, low read depth, borderline replicate concordance biological replicates with identical biosample missing control alignments ENCFF543VGD bed narrowPeak optimal idr thresholded peaks ENCSR000DYD ChIP-seq EFO:0001086 A549 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF144GCK, ENCFF320LNM, ENCFF377UTP 783720 ENCODE Processing Pipeline 5ec46ebb8b1b8b0b3efca5ee107976ef https://www.encodeproject.org/files/ENCFF543VGD/@@download/ENCFF543VGD.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent platforms, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CMT bed narrowPeak optimal idr thresholded peaks ENCSR000BRK ChIP-seq EFO:0002067 K562 cell line Homo sapiens TEAD4-human DNA see document see document False 2012-02-29 ENCODE 623516 ENCODE Consortium Analysis Working Group 90e37355f317426523602e11b566c865 https://www.encodeproject.org/files/ENCFF002CMT/@@download/ENCFF002CMT.bed.gz hg19 archived low read length, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF209MQX bed narrowPeak optimal idr thresholded peaks ENCSR000BRK ChIP-seq EFO:0002067 K562 cell line Homo sapiens TEAD4-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF318EUW, ENCFF740XZM, ENCFF835OES 592931 ENCODE Processing Pipeline 445f3e8cab3b8f9e3271a2b0583cf90c https://www.encodeproject.org/files/ENCFF209MQX/@@download/ENCFF209MQX.bed.gz hg19 released low read length, inconsistent platforms biological replicates with identical biosample ENCFF002CDQ bed narrowPeak optimal idr thresholded peaks ENCSR000ARD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 67149 ENCODE Consortium Analysis Working Group a83818c95d19d511da850dc44deb4452 https://www.encodeproject.org/files/ENCFF002CDQ/@@download/ENCFF002CDQ.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms missing derived_from control insufficient read depth, insufficient read depth ENCFF678JII bed narrowPeak optimal idr thresholded peaks ENCSR000ARD ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF178CPV, ENCFF411KUR, ENCFF859FLD 37189 ENCODE Processing Pipeline e89a61b52a33a3db505994d17393df9a https://www.encodeproject.org/files/ENCFF678JII/@@download/ENCFF678JII.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms control insufficient read depth, insufficient read depth ENCFF002CIB bed narrowPeak optimal idr thresholded peaks ENCSR000BGI ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens USF1-human DNA see document see document False 2011-07-18 ENCODE 213517 ENCODE Consortium Analysis Working Group 1bf2991d99a656a47e86871db2d854ab https://www.encodeproject.org/files/ENCFF002CIB/@@download/ENCFF002CIB.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, low read depth, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read depth extremely low read length ENCFF805GKD bed narrowPeak optimal idr thresholded peaks ENCSR000BGI ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens USF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF083HDR, ENCFF238JYT, ENCFF518BAN 139678 ENCODE Processing Pipeline f645df6ebe696a996c18451fce189d75 https://www.encodeproject.org/files/ENCFF805GKD/@@download/ENCFF805GKD.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, low read depth, mixed read lengths biological replicates with identical biosample insufficient read depth extremely low read length ENCFF629BFI bed narrowPeak optimal idr thresholded peaks ENCSR000EFS ChIP-seq EFO:0002067 K562 cell line Homo sapiens JUN-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF182AWR, ENCFF422SBX, ENCFF596KVH 388538 ENCODE Processing Pipeline 5ebab0cfbc3b0ee3b78931c4d1edd480 https://www.encodeproject.org/files/ENCFF629BFI/@@download/ENCFF629BFI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample insufficient read depth ENCFF002CVK bed narrowPeak optimal idr thresholded peaks ENCSR000EFJ ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens RAD21-human DNA see document see document False 2012-05-14 ENCODE 832534 ENCODE Consortium Analysis Working Group 575dc86072845c353a9146d296e3812f https://www.encodeproject.org/files/ENCFF002CVK/@@download/ENCFF002CVK.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF195CYT bed narrowPeak optimal idr thresholded peaks ENCSR000EFJ ChIP-seq EFO:0001196 IMR-90 cell line Homo sapiens RAD21-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF058CVP, ENCFF263ADC, ENCFF731ASC 701358 ENCODE Processing Pipeline 4d3907a2d16dc9294acca25831c73b27 https://www.encodeproject.org/files/ENCFF195CYT/@@download/ENCFF195CYT.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CSL bed narrowPeak optimal idr thresholded peaks ENCSR000ECZ ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens GTF2F1-human DNA see document see document False 2011-10-29 ENCODE 302946 ENCODE Consortium Analysis Working Group 6bb4c8493a3be44ede2ce45814c7c621 https://www.encodeproject.org/files/ENCFF002CSL/@@download/ENCFF002CSL.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF002CHQ bed narrowPeak optimal idr thresholded peaks ENCSR000BGQ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SPI1-human DNA see document see document False 2011-07-18 ENCODE 898654 ENCODE Consortium Analysis Working Group 7bfcaceb2634fd60e68d9c6730a55f7b https://www.encodeproject.org/files/ENCFF002CHQ/@@download/ENCFF002CHQ.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from, missing raw data in replicate ENCFF002DCV bed narrowPeak optimal idr thresholded peaks ENCSR000DTW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HMJ, ENCFF001HMN 1062592 ENCODE Consortium Analysis Working Group 7a84af76cdca6859dbcbdea72982e5a2 https://www.encodeproject.org/files/ENCFF002DCV/@@download/ENCFF002DCV.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth extremely low read depth ENCFF328FUO bed narrowPeak optimal idr thresholded peaks ENCSR000DTW ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF035ZLA, ENCFF326OIK, ENCFF425BCQ 861513 ENCODE Processing Pipeline 46f300b41d4198e9056638c44cfce2fe https://www.encodeproject.org/files/ENCFF328FUO/@@download/ENCFF328FUO.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth extremely low read depth ENCFF002CYN bed narrowPeak optimal idr thresholded peaks ENCSR000EFW ChIP-seq EFO:0002067 K562 cell line Homo sapiens UBTF-human DNA see document see document False 2012-05-14 ENCODE 157971 ENCODE Consortium Analysis Working Group f0874364421681ba4667eee47c4a2ccf https://www.encodeproject.org/files/ENCFF002CYN/@@download/ENCFF002CYN.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF938IOJ bed narrowPeak optimal idr thresholded peaks ENCSR000EFW ChIP-seq EFO:0002067 K562 cell line Homo sapiens UBTF-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF377VMB, ENCFF696JUU, ENCFF976ZTX 180556 ENCODE Processing Pipeline c9635f75ccfec61b8087434efc5ee93c https://www.encodeproject.org/files/ENCFF938IOJ/@@download/ENCFF938IOJ.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CHY bed narrowPeak optimal idr thresholded peaks ENCSR000BGS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 282154 ENCODE Consortium Analysis Working Group f6ea8668fc006929a00e08ac85165285 https://www.encodeproject.org/files/ENCFF002CHY/@@download/ENCFF002CHY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance missing derived_from, biological replicates with identical biosample ENCFF544NRC bed narrowPeak optimal idr thresholded peaks ENCSR000BGS ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF270KWZ, ENCFF466MWY, ENCFF626GCR 288644 ENCODE Processing Pipeline c83c2b45f1ee4fc7ad3a0bce44c11279 https://www.encodeproject.org/files/ENCFF544NRC/@@download/ENCFF544NRC.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample ENCFF002CLU bed narrowPeak optimal idr thresholded peaks ENCSR000BLI ChIP-seq EFO:0002067 K562 cell line Homo sapiens E2F6-human DNA see document see document False 2011-07-18 ENCODE 495891 ENCODE Consortium Analysis Working Group b27d8f475ea230f1eb132ba49fd7bffe https://www.encodeproject.org/files/ENCFF002CLU/@@download/ENCFF002CLU.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth missing derived_from, biological replicates with identical biosample insufficient read depth, poor library complexity, severe bottlenecking ENCFF917COW bed narrowPeak optimal idr thresholded peaks ENCSR000BLI ChIP-seq EFO:0002067 K562 cell line Homo sapiens E2F6-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF072IAO, ENCFF318UXE, ENCFF373HDQ 534776 ENCODE Processing Pipeline 50091b97c0b4ff0828db52d7241d577e https://www.encodeproject.org/files/ENCFF917COW/@@download/ENCFF917COW.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth biological replicates with identical biosample insufficient read depth, poor library complexity, severe bottlenecking ENCFF002CNO bed narrowPeak optimal idr thresholded peaks ENCSR000BLX ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour CTCF-human DNA see document see document False 2011-07-18 ENCODE 780608 ENCODE Consortium Analysis Working Group cf7d9a863c4693af019267a204431d14 https://www.encodeproject.org/files/ENCFF002CNO/@@download/ENCFF002CNO.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth missing control alignments ENCFF527RGJ bed narrowPeak optimal idr thresholded peaks ENCSR000BLX ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour CTCF-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF379KOF, ENCFF520BPM, ENCFF820XSG 663450 ENCODE Processing Pipeline c73c3ed0d619a8a3d5cb1f076dba5ad8 https://www.encodeproject.org/files/ENCFF527RGJ/@@download/ENCFF527RGJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read depth missing control alignments ENCFF002CPJ bed narrowPeak optimal idr thresholded peaks ENCSR000EYU ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens POLR3G-human DNA see document see document False 2011-10-29 ENCODE 4779 ENCODE Consortium Analysis Working Group 712b70baad14c99c3a3b0acacf502ae7 https://www.encodeproject.org/files/ENCFF002CPJ/@@download/ENCFF002CPJ.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CMW bed narrowPeak optimal idr thresholded peaks ENCSR000BKU ChIP-seq EFO:0002067 K562 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 255495 ENCODE Consortium Analysis Working Group ac07a1c66425f00441835fc502af0c71 https://www.encodeproject.org/files/ENCFF002CMW/@@download/ENCFF002CMW.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from control insufficient read depth, insufficient read depth, insufficient replicate concordance extremely low read depth ENCFF926FUM bed narrowPeak optimal idr thresholded peaks ENCSR000BKU ChIP-seq EFO:0002067 K562 cell line Homo sapiens YY1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF475ICG, ENCFF608RBZ, ENCFF897DAT 268837 ENCODE Processing Pipeline 73708b5a1b2700584fc477fdee757ee3 https://www.encodeproject.org/files/ENCFF926FUM/@@download/ENCFF926FUM.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample control insufficient read depth, insufficient read depth, insufficient replicate concordance extremely low read depth ENCFF002CJP bed narrowPeak optimal idr thresholded peaks ENCSR000BLU ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens TAF7-human DNA see document see document False 2011-07-18 ENCODE 250288 ENCODE Consortium Analysis Working Group 097300ddc73b049c220683a8ad25e146 https://www.encodeproject.org/files/ENCFF002CJP/@@download/ENCFF002CJP.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, low read depth biological replicates with identical biosample, missing derived_from ENCFF963TZI bed narrowPeak optimal idr thresholded peaks ENCSR000BLU ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens TAF7-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF120OKL, ENCFF299QBC, ENCFF435PQI 256893 ENCODE Processing Pipeline 3fbc18f78ff0a967465e5f4f920095e7 https://www.encodeproject.org/files/ENCFF963TZI/@@download/ENCFF963TZI.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, low read depth biological replicates with identical biosample ENCFF002CMV bed narrowPeak optimal idr thresholded peaks ENCSR000BKT ChIP-seq EFO:0002067 K562 cell line Homo sapiens USF1-human DNA see document see document False 2011-07-18 ENCODE 364508 ENCODE Consortium Analysis Working Group ed11b14aaf5f989b08e1da0a481d73cf https://www.encodeproject.org/files/ENCFF002CMV/@@download/ENCFF002CMV.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from control insufficient read depth, poor library complexity, severe bottlenecking extremely low read depth ENCFF334FMW bed narrowPeak optimal idr thresholded peaks ENCSR000BKT ChIP-seq EFO:0002067 K562 cell line Homo sapiens USF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF278MWT, ENCFF385JVK, ENCFF738UPC 343702 ENCODE Processing Pipeline c8c6a2b189f45df818d83179943cc412 https://www.encodeproject.org/files/ENCFF334FMW/@@download/ENCFF334FMW.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample control insufficient read depth, poor library complexity, severe bottlenecking extremely low read depth ENCFF002CZJ bed narrowPeak optimal idr thresholded peaks ENCSR000EWV ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens GATA3-human DNA see document see document False 2011-10-29 ENCODE 161667 ENCODE Consortium Analysis Working Group eef7fcc9c11b39e4bcfe336e069c07cd https://www.encodeproject.org/files/ENCFF002CZJ/@@download/ENCFF002CZJ.bed.gz hg19 released low read length, inconsistent platforms missing derived_from, biological replicates with identical biosample ENCFF002CTA bed narrowPeak optimal idr thresholded peaks ENCSR000ECY ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens PRDM1-human DNA see document see document False 2011-10-29 ENCODE 118478 ENCODE Consortium Analysis Working Group 9cadb4570ee602e8e58dadebda65706f https://www.encodeproject.org/files/ENCFF002CTA/@@download/ENCFF002CTA.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CVF bed narrowPeak optimal idr thresholded peaks ENCSR000EFB ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 258619 ENCODE Consortium Analysis Working Group 9453bb0f5acff506b2fafabd9f719126 https://www.encodeproject.org/files/ENCFF002CVF/@@download/ENCFF002CVF.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CRN bed narrowPeak optimal idr thresholded peaks ENCSR000EUZ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens TRIM28-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF000WXU, ENCFF000WXZ 500142 ENCODE Consortium Analysis Working Group 1e87827c15e1ffa73eec27cc3d1a1347 https://www.encodeproject.org/files/ENCFF002CRN/@@download/ENCFF002CRN.bed.gz hg19 archived control low read depth, low read length, borderline replicate concordance ENCFF721FYE bed narrowPeak optimal idr thresholded peaks ENCSR000EUZ ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens TRIM28-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF577OXM, ENCFF588DFT, ENCFF736TVE 546570 ENCODE Processing Pipeline e683f117e45e4e61bdd765e45e363858 https://www.encodeproject.org/files/ENCFF721FYE/@@download/ENCFF721FYE.bed.gz hg19 released control low read depth, low read length, borderline replicate concordance ENCFF002CXC bed narrowPeak optimal idr thresholded peaks ENCSR000EGX ChIP-seq EFO:0002067 K562 cell line Homo sapiens MAFK-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF000YSW, ENCFF000YSY 490515 ENCODE Consortium Analysis Working Group a22f865a9c3be78243d4c596c899686a https://www.encodeproject.org/files/ENCFF002CXC/@@download/ENCFF002CXC.bed.gz hg19 archived low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF812QPN bed narrowPeak optimal idr thresholded peaks ENCSR000EGX ChIP-seq EFO:0002067 K562 cell line Homo sapiens MAFK-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF072BMK, ENCFF660EKS, ENCFF887IBL 482148 ENCODE Processing Pipeline 9508b48c5610d3882fe8c0e0e9bbd23e https://www.encodeproject.org/files/ENCFF812QPN/@@download/ENCFF812QPN.bed.gz hg19 released low read length, inconsistent target of control experiment biological replicates with identical biosample ENCFF885KLR bed narrowPeak optimal idr thresholded peaks ENCSR663WAR ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens REST-human DNA False 2017-01-08 ENCODE 1, 2 ENCFF001TDO, ENCFF029AGK, ENCFF371JLL, ENCFF651ZPC 115171 ENCODE Processing Pipeline f20eefcfc1e4a4ed95f2d2d253a7750b https://www.encodeproject.org/files/ENCFF885KLR/@@download/ENCFF885KLR.bed.gz hg19 released low read length, low read depth, antibody characterized with exemption, mixed read lengths ENCFF002CLW bed narrowPeak optimal idr thresholded peaks ENCSR000BMD ChIP-seq EFO:0002067 K562 cell line Homo sapiens ELF1-human DNA see document see document False 2011-07-18 ENCODE 547340 ENCODE Consortium Analysis Working Group 7f45cf21d10df1bd05cc423854e7a79f https://www.encodeproject.org/files/ENCFF002CLW/@@download/ENCFF002CLW.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample poor library complexity, insufficient replicate concordance, severe bottlenecking extremely low read depth ENCFF564WEB bed narrowPeak optimal idr thresholded peaks ENCSR000BMD ChIP-seq EFO:0002067 K562 cell line Homo sapiens ELF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF445HQE, ENCFF634DSI, ENCFF875HXY 561894 ENCODE Processing Pipeline eacf14da9a574f49fd8a632a87be3b4d https://www.encodeproject.org/files/ENCFF564WEB/@@download/ENCFF564WEB.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample poor library complexity, insufficient replicate concordance, severe bottlenecking extremely low read depth ENCFF002CHV bed narrowPeak optimal idr thresholded peaks ENCSR000BHK ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens SP1-human DNA see document see document False 2011-07-18 ENCODE 357355 ENCODE Consortium Analysis Working Group f3352a8a478ebcbe54fda2f2becbd4eb https://www.encodeproject.org/files/ENCFF002CHV/@@download/ENCFF002CHV.bed.gz hg19 released low read length missing derived_from, missing raw data in replicate ENCFF450CNK bed narrowPeak optimal idr thresholded peaks ENCSR203QEB ChIP-seq EFO:0002713 Panc1 cell line Homo sapiens CTCF-human DNA False 2017-07-21 ENCODE 1, 2 ENCFF001TDO, ENCFF032KSH, ENCFF255EDE, ENCFF563CXH 1438655 ENCODE Processing Pipeline 2c3f3e32ca1959fa2952b084fb115bed https://www.encodeproject.org/files/ENCFF450CNK/@@download/ENCFF450CNK.bed.gz hg19 released mild to moderate bottlenecking NTR biosample ENCFF002COP bed narrowPeak optimal idr thresholded peaks ENCSR000DZC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RCOR1-human DNA see document see document False 2012-05-14 ENCODE 37449 ENCODE Consortium Analysis Working Group 38600372fb5e2c126dacf2f7e6c1b58b https://www.encodeproject.org/files/ENCFF002COP/@@download/ENCFF002COP.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF898MUV bed narrowPeak optimal idr thresholded peaks ENCSR000DZC ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens RCOR1-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF118LBD, ENCFF489ZRF, ENCFF906FFH 197171 ENCODE Processing Pipeline 590976200dc7a4de06cc75f4f0991b60 https://www.encodeproject.org/files/ENCFF898MUV/@@download/ENCFF898MUV.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CEE bed narrowPeak optimal idr thresholded peaks ENCSR000ARH ChIP-seq CL:0000515 skeletal muscle myoblast primary cell Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 42379 ENCODE Consortium Analysis Working Group 9e2473f434eaa01853b1ef380f0b3a3a https://www.encodeproject.org/files/ENCFF002CEE/@@download/ENCFF002CEE.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms missing derived_from ENCFF380TJK bed narrowPeak optimal idr thresholded peaks ENCSR000ARH ChIP-seq CL:0000515 skeletal muscle myoblast primary cell Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF442AZU, ENCFF801WBW, ENCFF965BIL 40740 ENCODE Processing Pipeline fd7bd8fb764b03f70431855e8c0e1d12 https://www.encodeproject.org/files/ENCFF380TJK/@@download/ENCFF380TJK.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms ENCFF371OGO bed narrowPeak optimal idr thresholded peaks ENCSR000DYP ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens ZNF384-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF745TRP, ENCFF824VGN, ENCFF967EHX 253028 ENCODE Processing Pipeline d302851e104dd8ae0a5b6a49c01de18c https://www.encodeproject.org/files/ENCFF371OGO/@@download/ENCFF371OGO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CVW bed narrowPeak optimal idr thresholded peaks ENCSR000FAI ChIP-seq EFO:0002067 K562 cell line Homo sapiens FOS-human DNA see document see document False 2011-10-29 ENCODE 153814 ENCODE Consortium Analysis Working Group 6dcfdb373210f92a6f160dc9869db949 https://www.encodeproject.org/files/ENCFF002CVW/@@download/ENCFF002CVW.bed.gz hg19 released duplicate lane review, biological replicates with identical biosample, missing derived_from insufficient read length ENCFF361QZZ bed narrowPeak optimal idr thresholded peaks ENCSR000ATR ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SAP30-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF160XEU, ENCFF199EXY, ENCFF350FQQ 167198 ENCODE Processing Pipeline 1b89bc58e2171e5e0f4fc7a38b9319d7 https://www.encodeproject.org/files/ENCFF361QZZ/@@download/ENCFF361QZZ.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth, insufficient replicate concordance ENCFF002CXU bed narrowPeak optimal idr thresholded peaks ENCSR000FAD ChIP-seq EFO:0002067 K562 cell line Homo sapiens RAD21-human DNA see document see document False 2011-10-29 ENCODE 367853 ENCODE Consortium Analysis Working Group 37b2c03ce75692dc617fa321d3f65c51 https://www.encodeproject.org/files/ENCFF002CXU/@@download/ENCFF002CXU.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CMU bed narrowPeak optimal idr thresholded peaks ENCSR000BNN ChIP-seq EFO:0002067 K562 cell line Homo sapiens THAP1-human DNA see document see document False 2011-07-18 ENCODE 71409 ENCODE Consortium Analysis Working Group 7cfa19d276cd276596c0eca1da30d958 https://www.encodeproject.org/files/ENCFF002CMU/@@download/ENCFF002CMU.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from control insufficient read depth ENCFF641LJY bed narrowPeak optimal idr thresholded peaks ENCSR000BNN ChIP-seq EFO:0002067 K562 cell line Homo sapiens THAP1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF331SRY, ENCFF495GTU, ENCFF508HQW 110805 ENCODE Processing Pipeline 76675a78c7d8cf4618002d20c7af192b https://www.encodeproject.org/files/ENCFF641LJY/@@download/ENCFF641LJY.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample control insufficient read depth ENCFF002DAE bed narrowPeak optimal idr thresholded peaks ENCSR000DMZ ChIP-seq EFO:0001086 A549 cell line Homo sapiens POLR2A-human DNA see document see document False 2012-08-27 ENCODE 362419 ENCODE Consortium Analysis Working Group 9cb690330aa44a71ed0e54db45920aba https://www.encodeproject.org/files/ENCFF002DAE/@@download/ENCFF002DAE.bed.gz hg19 released low read length, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample ENCFF002CUO bed narrowPeak optimal idr thresholded peaks ENCSR000EEQ ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens forskolin and pyruvate 6.0 hour PPARGC1A-human DNA see document see document False 2011-10-29 ENCODE 35844 ENCODE Consortium Analysis Working Group d876cfc8888d86713d69e26352a7ba2b https://www.encodeproject.org/files/ENCFF002CUO/@@download/ENCFF002CUO.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF445ATY bed narrowPeak optimal idr thresholded peaks ENCSR000DLB ChIP-seq EFO:0005346 GM13977 cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF336VRJ, ENCFF637DKG, ENCFF807PRZ 750841 ENCODE Processing Pipeline 9cb6f944b978f18fb4831d56fa835b97 https://www.encodeproject.org/files/ENCFF445ATY/@@download/ENCFF445ATY.bed.gz hg19 released control low read depth, mild to moderate bottlenecking, low read depth biological replicates with identical biosample insufficient read depth missing control alignments ENCFF858QMI bed narrowPeak optimal idr thresholded peaks ENCSR000BRW ChIP-seq EFO:0002067 K562 cell line Homo sapiens TRIM28-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF140YDA, ENCFF700BWV, ENCFF721WZY 243606 ENCODE Processing Pipeline d4d2b801157ddbdfb7166fcf31bbfb22 https://www.encodeproject.org/files/ENCFF858QMI/@@download/ENCFF858QMI.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, low read depth biological replicates with identical biosample, inconsistent mapped reads lengths, out of date analysis insufficient read depth ENCFF002CEZ bed narrowPeak optimal idr thresholded peaks ENCSR000ASE ChIP-seq CL:0002551 fibroblast of dermis primary cell Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF000CIX, ENCFF000CJA 131222 ENCODE Consortium Analysis Working Group 287ec89b9a3dbe365223c0b8815f8de0 https://www.encodeproject.org/files/ENCFF002CEZ/@@download/ENCFF002CEZ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth ENCFF156CFD bed narrowPeak optimal idr thresholded peaks ENCSR000ASE ChIP-seq CL:0002551 fibroblast of dermis primary cell Homo sapiens EZH2-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF226DWG, ENCFF551TJN, ENCFF585OAO 236848 ENCODE Processing Pipeline be0dd461421f8d0c3111eab20915f28c https://www.encodeproject.org/files/ENCFF156CFD/@@download/ENCFF156CFD.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth ENCFF861DPF bed narrowPeak optimal idr thresholded peaks ENCSR000EIC ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens CTCF-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF079HZU, ENCFF781THQ, ENCFF960NKG 888678 ENCODE Processing Pipeline 2669e0f55968e04ed42440428a06c9df https://www.encodeproject.org/files/ENCFF861DPF/@@download/ENCFF861DPF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CIJ bed narrowPeak optimal idr thresholded peaks ENCSR000BIJ ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens SPI1-human DNA see document see document False 2011-07-18 ENCODE 1209797 ENCODE Consortium Analysis Working Group 08161bbdfa7636291c380aafb6743949 https://www.encodeproject.org/files/ENCFF002CIJ/@@download/ENCFF002CIJ.bed.gz hg19 archived control low read depth, low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF526NYA bed narrowPeak optimal idr thresholded peaks ENCSR000BIJ ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens SPI1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF200SPQ, ENCFF427TMP, ENCFF461JCM 921797 ENCODE Processing Pipeline 3849889c70e956a9bcfb72dea5ee2b35 https://www.encodeproject.org/files/ENCFF526NYA/@@download/ENCFF526NYA.bed.gz hg19 released control low read depth, low read length, low read depth biological replicates with identical biosample ENCFF002CKU bed narrowPeak optimal idr thresholded peaks ENCSR000BOT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens REST-human DNA see document see document False 2012-02-29 ENCODE 279113 ENCODE Consortium Analysis Working Group 944de00024e32607ac280a63ed81b7c1 https://www.encodeproject.org/files/ENCFF002CKU/@@download/ENCFF002CKU.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample, missing derived_from ENCFF854KPC bed narrowPeak optimal idr thresholded peaks ENCSR000BOT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens REST-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF172OLJ, ENCFF543QRY, ENCFF658GRO 286172 ENCODE Processing Pipeline d364c2fca920aaecc8c604ba03c2b902 https://www.encodeproject.org/files/ENCFF854KPC/@@download/ENCFF854KPC.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample ENCFF002CZM bed narrowPeak optimal idr thresholded peaks ENCSR000EWT ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens TCF7L2-human DNA see document see document False 2011-10-29 ENCODE 263955 ENCODE Consortium Analysis Working Group 79a1ee48bf1fd09b432fe6f730783b9d https://www.encodeproject.org/files/ENCFF002CZM/@@download/ENCFF002CZM.bed.gz hg19 released low read length, inconsistent platforms biological replicates with identical biosample, missing derived_from ENCFF888JDR bed narrowPeak optimal idr thresholded peaks ENCSR843ZUP ChIP-seq CL:0002319 neural cell in vitro differentiated cells Homo sapiens EP300-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF114UVX, ENCFF287VNA, ENCFF777EIJ 829546 ENCODE Processing Pipeline c2b6e7c7a961f98ca60edd5977ebb6dc https://www.encodeproject.org/files/ENCFF888JDR/@@download/ENCFF888JDR.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF002CMS bed narrowPeak optimal idr thresholded peaks ENCSR000BNM ChIP-seq EFO:0002067 K562 cell line Homo sapiens TAF7-human DNA see document see document False 2011-07-18 ENCODE 69164 ENCODE Consortium Analysis Working Group 063d398298f51274e96c4d9e0cb76741 https://www.encodeproject.org/files/ENCFF002CMS/@@download/ENCFF002CMS.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample control insufficient read depth ENCFF034CQR bed narrowPeak optimal idr thresholded peaks ENCSR000BNM ChIP-seq EFO:0002067 K562 cell line Homo sapiens TAF7-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF070BNL, ENCFF271GZS, ENCFF611EGN 11755 ENCODE Processing Pipeline 7a373886ebf5e3085fc3dd43d0d662da https://www.encodeproject.org/files/ENCFF034CQR/@@download/ENCFF034CQR.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample control insufficient read depth ENCFF002DDX bed narrowPeak optimal idr thresholded peaks ENCSR000DJZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-HDAC8-human DNA see document see document False 2011-06-03 ENCODE 33793 ENCODE Consortium Analysis Working Group d1487abda2136e261aadb10bdf04addd https://www.encodeproject.org/files/ENCFF002DDX/@@download/ENCFF002DDX.bed.gz hg19 archived low read length, low read depth, missing genetic modification characterization missing derived_from insufficient replicate concordance ENCFF833KXP bed narrowPeak optimal idr thresholded peaks ENCSR000DJZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens eGFP-HDAC8-human DNA see document see document False 2011-06-03 ENCODE 1, 2 ENCFF001TDO, ENCFF011ZRR, ENCFF547GIJ, ENCFF835SWC 43873 ENCODE Processing Pipeline 215555097926bb12b0154429fa63d0fe https://www.encodeproject.org/files/ENCFF833KXP/@@download/ENCFF833KXP.bed.gz hg19 released low read length, low read depth, missing genetic modification characterization insufficient replicate concordance ENCFF002CEY bed narrowPeak optimal idr thresholded peaks ENCSR000APM ChIP-seq CL:0002551 fibroblast of dermis primary cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1, 2 ENCFF000CIQ, ENCFF000CIT 1034559 ENCODE Consortium Analysis Working Group fbd1f02fde4cb1b1657d6375f4c28974 https://www.encodeproject.org/files/ENCFF002CEY/@@download/ENCFF002CEY.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity NTR biosample insufficient read depth, severe bottlenecking missing control alignments ENCFF638OUB bed narrowPeak optimal idr thresholded peaks ENCSR000APM ChIP-seq CL:0002551 fibroblast of dermis primary cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF180UME, ENCFF326AWX, ENCFF622MTR 769456 ENCODE Processing Pipeline d417f489c6a7b0ca45096009a20f040e https://www.encodeproject.org/files/ENCFF638OUB/@@download/ENCFF638OUB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity NTR biosample insufficient read depth, severe bottlenecking missing control alignments ENCFF002CDX bed narrowPeak optimal idr thresholded peaks ENCSR000ATC ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens EZH2-human DNA see document see document False 2012-08-06 ENCODE 36455 ENCODE Consortium Analysis Working Group 84d947b6e6084a070659758411a4601d https://www.encodeproject.org/files/ENCFF002CDX/@@download/ENCFF002CDX.bed.gz hg19 archived low read length, mild to moderate bottlenecking, inconsistent platforms missing derived_from ENCFF751GGI bed narrowPeak optimal idr thresholded peaks ENCSR000ATC ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens EZH2-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF233VOB, ENCFF427OVX, ENCFF981RBQ 57412 ENCODE Processing Pipeline 7aedab00b9f60d6da4433352c11c9015 https://www.encodeproject.org/files/ENCFF751GGI/@@download/ENCFF751GGI.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent platforms ENCFF002CMI bed narrowPeak optimal idr thresholded peaks ENCSR000BMR ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 532836 ENCODE Consortium Analysis Working Group 7fe8a69c0507eec9a25e61ba3bca8410 https://www.encodeproject.org/files/ENCFF002CMI/@@download/ENCFF002CMI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample control insufficient read depth ENCFF947KPB bed narrowPeak optimal idr thresholded peaks ENCSR000BMR ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF281VBW, ENCFF481CBJ, ENCFF773FKD 666860 ENCODE Processing Pipeline eca36e86c5002474a3e913a6d4cb699e https://www.encodeproject.org/files/ENCFF947KPB/@@download/ENCFF947KPB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample control insufficient read depth ENCFF002CSX bed narrowPeak optimal idr thresholded peaks ENCSR000ECV ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens EP300-human DNA see document see document False 2011-10-29 ENCODE 609315 ENCODE Consortium Analysis Working Group 11543569f44a558a29a45baff1a62ddf https://www.encodeproject.org/files/ENCFF002CSX/@@download/ENCFF002CSX.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CZZ bed narrowPeak optimal idr thresholded peaks ENCSR000EYB ChIP-seq EFO:0002717 SH-SY5Y cell line Homo sapiens GATA2-human DNA see document see document False 2011-10-29 ENCODE 780304 ENCODE Consortium Analysis Working Group 4aa5c42a6ba3fff0bc0e0e15e8662518 https://www.encodeproject.org/files/ENCFF002CZZ/@@download/ENCFF002CZZ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF220YOA bed narrowPeak optimal idr thresholded peaks ENCSR000EYB ChIP-seq EFO:0002717 SH-SY5Y cell line Homo sapiens GATA2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF086NRZ, ENCFF325FPK, ENCFF770MLZ 588315 ENCODE Processing Pipeline 79a450617ab593291997e806ddec83f4 https://www.encodeproject.org/files/ENCFF220YOA/@@download/ENCFF220YOA.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002CDV bed narrowPeak optimal idr thresholded peaks ENCSR000AQC ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RBBP5-human DNA see document see document False 2012-03-06 ENCODE 387565 ENCODE Consortium Analysis Working Group 762dfc6fd710b0203a5aa944ce4fffc6 https://www.encodeproject.org/files/ENCFF002CDV/@@download/ENCFF002CDV.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, low read depth missing derived_from, sequencing runs labeled as technical replicates ENCFF135DOZ bed narrowPeak optimal idr thresholded peaks ENCSR000AQC ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RBBP5-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF715JKT, ENCFF918PUO, ENCFF977LNV 422896 ENCODE Processing Pipeline fd6e3bb3e059f8ffb43f8316d044a984 https://www.encodeproject.org/files/ENCFF135DOZ/@@download/ENCFF135DOZ.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, low read depth sequencing runs labeled as technical replicates ENCFF002CTE bed narrowPeak optimal idr thresholded peaks ENCSR000ECS ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens SMC3-human DNA see document see document False 2011-10-29 ENCODE 939484 ENCODE Consortium Analysis Working Group 4fbd9b20cc5b419c3086e3ca689fe9ee https://www.encodeproject.org/files/ENCFF002CTE/@@download/ENCFF002CTE.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from ENCFF468CFJ bed narrowPeak optimal idr thresholded peaks ENCSR000AVB ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens HDAC2-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF327ORV, ENCFF756FVQ, ENCFF848MDV 335244 ENCODE Processing Pipeline 88657f3ff9fbb5c3e01288866fcfba99 https://www.encodeproject.org/files/ENCFF468CFJ/@@download/ENCFF468CFJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity ENCFF002CZP bed narrowPeak optimal idr thresholded peaks ENCSR000EHS ChIP-seq EFO:0002798 NB4 cell line Homo sapiens MAX-human DNA see document see document False 2011-10-29 ENCODE 796018 ENCODE Consortium Analysis Working Group 5f98fed6e18417827c6df77859c1cf0e https://www.encodeproject.org/files/ENCFF002CZP/@@download/ENCFF002CZP.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from ENCFF002CIU bed narrowPeak optimal idr thresholded peaks ENCSR000BNH ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CTCF-human DNA see document see document False 2011-07-18 ENCODE 1097021 ENCODE Consortium Analysis Working Group 0071595b80838346905bf40e3186b251 https://www.encodeproject.org/files/ENCFF002CIU/@@download/ENCFF002CIU.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity biological replicates with identical biosample, missing derived_from missing control alignments ENCFF402JJK bed narrowPeak optimal idr thresholded peaks ENCSR000BNH ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CTCF-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF289JUZ, ENCFF722MDG, ENCFF775VDO 888822 ENCODE Processing Pipeline f1680aa6ab0504910c3a639cd354bd47 https://www.encodeproject.org/files/ENCFF402JJK/@@download/ENCFF402JJK.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity biological replicates with identical biosample missing control alignments ENCFF002CFW bed narrowPeak optimal idr thresholded peaks ENCSR000BHI ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 100 nM 1 hour POLR2A-human DNA see document see document False 2011-07-18 ENCODE 577733 ENCODE Consortium Analysis Working Group 140ea27d7d1b5b9bf446ebf6ad5b8be5 https://www.encodeproject.org/files/ENCFF002CFW/@@download/ENCFF002CFW.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF532MZI bed narrowPeak optimal idr thresholded peaks ENCSR000BHI ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 100 nM 1 hour POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF265TSG, ENCFF315RID, ENCFF620JEB 494725 ENCODE Processing Pipeline bc7c9525a38b23ac07d0f598744dab17 https://www.encodeproject.org/files/ENCFF532MZI/@@download/ENCFF532MZI.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample insufficient read depth ENCFF002CFX bed narrowPeak optimal idr thresholded peaks ENCSR000BHH ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour POLR2A-human DNA see document see document False 2011-07-18 ENCODE 581364 ENCODE Consortium Analysis Working Group 0b45eb55fec3034011a0f3cb9340b833 https://www.encodeproject.org/files/ENCFF002CFX/@@download/ENCFF002CFX.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF292PSZ bed narrowPeak optimal idr thresholded peaks ENCSR000BHH ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF031ZVS, ENCFF170PDN, ENCFF364YCD 538973 ENCODE Processing Pipeline e8d72a684afd2ff3959a8669a598c82b https://www.encodeproject.org/files/ENCFF292PSZ/@@download/ENCFF292PSZ.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CLV bed narrowPeak optimal idr thresholded peaks ENCSR000BNE ChIP-seq EFO:0002067 K562 cell line Homo sapiens EGR1-human DNA see document see document False 2011-07-18 ENCODE 754687 ENCODE Consortium Analysis Working Group 703c04df1ee5c8d5245c2751d593b317 https://www.encodeproject.org/files/ENCFF002CLV/@@download/ENCFF002CLV.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample control insufficient read depth ENCFF182QDI bed narrowPeak optimal idr thresholded peaks ENCSR000BNE ChIP-seq EFO:0002067 K562 cell line Homo sapiens EGR1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF511ZEU, ENCFF537QVM, ENCFF671MRQ 630223 ENCODE Processing Pipeline 32b8aef967771ff7865454fc10cc9ab3 https://www.encodeproject.org/files/ENCFF182QDI/@@download/ENCFF182QDI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample control insufficient read depth ENCFF002CZL bed narrowPeak optimal idr thresholded peaks ENCSR000EWX ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens HA-E2F1-human DNA see document see document False 2011-10-29 ENCODE 503975 ENCODE Consortium Analysis Working Group 401f2b31a20d94eecf6c435323b5861b https://www.encodeproject.org/files/ENCFF002CZL/@@download/ENCFF002CZL.bed.gz hg19 released missing genetic modification characterization biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002COH bed narrowPeak optimal idr thresholded peaks ENCSR000EUI ChIP-seq EFO:0005333 GM08714 cell line Homo sapiens ZNF274-human DNA see document see document False 2012-05-14 ENCODE 15776 ENCODE Consortium Analysis Working Group c5aaead3929bf620507a079620b8e309 https://www.encodeproject.org/files/ENCFF002COH/@@download/ENCFF002COH.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF757CRW bed narrowPeak optimal idr thresholded peaks ENCSR000EUI ChIP-seq EFO:0005333 GM08714 cell line Homo sapiens ZNF274-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF238OBY, ENCFF448IAU, ENCFF624BNC 19404 ENCODE Processing Pipeline 1362aba67dcd62317c81e96eb29b58e0 https://www.encodeproject.org/files/ENCFF757CRW/@@download/ENCFF757CRW.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002DAI bed narrowPeak optimal idr thresholded peaks ENCSR000DKU ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MYC-human DNA see document see document False 2011-03-17 ENCODE 89590 ENCODE Consortium Analysis Working Group 6520b2bab2bb01aa3703ef80e352b4c0 https://www.encodeproject.org/files/ENCFF002DAI/@@download/ENCFF002DAI.bed.gz hg19 released low read length, inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CFF bed narrowPeak optimal idr thresholded peaks ENCSR000APF ChIP-seq CL:0000062 osteoblast primary cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1, 2 ENCFF000CUV, ENCFF000CUX 1115884 ENCODE Consortium Analysis Working Group ee768cfc76a01e009e13592fff19b850 https://www.encodeproject.org/files/ENCFF002CFF/@@download/ENCFF002CFF.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity NTR biosample extremely low read depth ENCFF609ETO bed narrowPeak optimal idr thresholded peaks ENCSR000APF ChIP-seq CL:0000062 osteoblast primary cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF339XPB, ENCFF397OQE, ENCFF757USJ 771426 ENCODE Processing Pipeline f18afe6d9ac8129dd7c728a8434763f5 https://www.encodeproject.org/files/ENCFF609ETO/@@download/ENCFF609ETO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity NTR biosample extremely low read depth ENCFF002CER bed narrowPeak optimal idr thresholded peaks ENCSR000AQH ChIP-seq EFO:0002067 K562 cell line Homo sapiens PHF8-human DNA see document see document False 2012-03-06 ENCODE 471008 ENCODE Consortium Analysis Working Group 72b25cc6efcdb2305f20e2fcdad29a58 https://www.encodeproject.org/files/ENCFF002CER/@@download/ENCFF002CER.bed.gz hg19 archived low read length, mixed run types, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity missing derived_from, missing raw data in replicate insufficient replicate concordance ENCFF626KTJ bed narrowPeak optimal idr thresholded peaks ENCSR000AQH ChIP-seq EFO:0002067 K562 cell line Homo sapiens PHF8-human DNA see document see document False 2012-03-06 ENCODE 2, 3 ENCFF001TDO, ENCFF192RQZ, ENCFF430CBL, ENCFF739TWP 514874 ENCODE Processing Pipeline cd4e59b9e70e529ce4a9b478d544124a https://www.encodeproject.org/files/ENCFF626KTJ/@@download/ENCFF626KTJ.bed.gz hg19 released low read length, mixed run types, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity missing raw data in replicate insufficient replicate concordance ENCFF694SEF bed narrowPeak optimal idr thresholded peaks ENCSR000DMH ChIP-seq UBERON:0002048 lung tissue Homo sapiens CTCF-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF202BTH, ENCFF306ACX, ENCFF553SJU 349464 ENCODE Processing Pipeline b1dde7461d8305cdcaa652804ba6b72d https://www.encodeproject.org/files/ENCFF694SEF/@@download/ENCFF694SEF.bed.gz hg19 released mild to moderate bottlenecking control extremely low read depth, extremely low read depth ENCFF002DBN bed narrowPeak optimal idr thresholded peaks ENCSR000DMR ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1753435 ENCODE Consortium Analysis Working Group 496fbddea93ea78e80800d1806a16089 https://www.encodeproject.org/files/ENCFF002DBN/@@download/ENCFF002DBN.bed.gz hg19 archived low read length, mild to moderate bottlenecking biological replicates with identical biosample, missing derived_from ENCFF176YNV bed narrowPeak optimal idr thresholded peaks ENCSR000DMR ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF574PXY, ENCFF853XFI, ENCFF993IKO 1333405 ENCODE Processing Pipeline 0b315f031f7a61a307a180b6362a29bf https://www.encodeproject.org/files/ENCFF176YNV/@@download/ENCFF176YNV.bed.gz hg19 released low read length, mild to moderate bottlenecking biological replicates with identical biosample ENCFF002DBI bed narrowPeak optimal idr thresholded peaks ENCSR000DMQ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MYC-human DNA see document see document False 2011-03-17 ENCODE 646105 ENCODE Consortium Analysis Working Group 079ff306c505ce89245d669add456154 https://www.encodeproject.org/files/ENCFF002DBI/@@download/ENCFF002DBI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF695IQU bed narrowPeak optimal idr thresholded peaks ENCSR000DMQ ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MYC-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF153LKX, ENCFF787DCF, ENCFF819JEC 568613 ENCODE Processing Pipeline f9b5662aa7654ed4987bf58839091041 https://www.encodeproject.org/files/ENCFF695IQU/@@download/ENCFF695IQU.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF002DAH bed narrowPeak optimal idr thresholded peaks ENCSR000DKM ChIP-seq EFO:0002782 H54 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-03-17 ENCODE 343743 ENCODE Consortium Analysis Working Group 6ebb6642e457e87e099582be0da6bfa1 https://www.encodeproject.org/files/ENCFF002DAH/@@download/ENCFF002DAH.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF002CSV bed narrowPeak optimal idr thresholded peaks ENCSR000DNR ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens NFYB-human DNA see document see document False 2011-10-29 ENCODE 176124 ENCODE Consortium Analysis Working Group 25d644731439a2bfeab2c0fd6d75a7ff https://www.encodeproject.org/files/ENCFF002CSV/@@download/ENCFF002CSV.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CFQ bed narrowPeak optimal idr thresholded peaks ENCSR000BHE ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 500 pM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 28679 ENCODE Consortium Analysis Working Group 9e7323952052c92533c6411e299ea90a https://www.encodeproject.org/files/ENCFF002CFQ/@@download/ENCFF002CFQ.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF841IFL bed narrowPeak optimal idr thresholded peaks ENCSR000BHE ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 500 pM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF277VVP, ENCFF660YDK, ENCFF875UKZ 37448 ENCODE Processing Pipeline 99a7cd47d14f820001e3c8498baebe7d https://www.encodeproject.org/files/ENCFF841IFL/@@download/ENCFF841IFL.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CTO bed narrowPeak optimal idr thresholded peaks ENCSR000ECJ ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens ZKSCAN1-human DNA see document see document False 2012-05-14 ENCODE 108760 ENCODE Consortium Analysis Working Group 5599b7953ea928f46244fadce1a07df5 https://www.encodeproject.org/files/ENCFF002CTO/@@download/ENCFF002CTO.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CQB bed narrowPeak optimal idr thresholded peaks ENCSR000EAN ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens tumor necrosis factor 25 ng/mL 6 hour RELA-human DNA see document see document False 2011-10-29 ENCODE 197610 ENCODE Consortium Analysis Working Group a521d8594d1306ceb49e88c81a07b044 https://www.encodeproject.org/files/ENCFF002CQB/@@download/ENCFF002CQB.bed.gz hg19 released missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CME bed narrowPeak optimal idr thresholded peaks ENCSR000BRS ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR2F2-human DNA see document see document False 2012-02-29 ENCODE 342030 ENCODE Consortium Analysis Working Group 30d95e9beac104673ddddd030762942b https://www.encodeproject.org/files/ENCFF002CME/@@download/ENCFF002CME.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms missing derived_from, biological replicates with identical biosample ENCFF255EOB bed narrowPeak optimal idr thresholded peaks ENCSR000BRS ChIP-seq EFO:0002067 K562 cell line Homo sapiens NR2F2-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF622IDZ, ENCFF829WNA, ENCFF952DON 359095 ENCODE Processing Pipeline 261091a7cd8dcdf58adf98e3c6d32d2b https://www.encodeproject.org/files/ENCFF255EOB/@@download/ENCFF255EOB.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms biological replicates with identical biosample ENCFF002DCP bed narrowPeak optimal idr thresholded peaks ENCSR000DTA ChIP-seq CL:2000044 brain microvascular endothelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HJM, ENCFF001HJN 1165376 ENCODE Consortium Analysis Working Group 6be1b61f130ab7cd7c7fca31d9c6b187 https://www.encodeproject.org/files/ENCFF002DCP/@@download/ENCFF002DCP.bed.gz hg19 archived moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing control alignments ENCFF065LHJ bed narrowPeak optimal idr thresholded peaks ENCSR000DTA ChIP-seq CL:2000044 brain microvascular endothelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF113ITH, ENCFF163DTZ, ENCFF222LZR 978732 ENCODE Processing Pipeline 75759957f5c6749d741f15b5790add81 https://www.encodeproject.org/files/ENCFF065LHJ/@@download/ENCFF065LHJ.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing control alignments ENCFF002CXB bed narrowPeak optimal idr thresholded peaks ENCSR000EGI ChIP-seq EFO:0002067 K562 cell line Homo sapiens MAFF-human DNA see document see document False 2012-05-14 ENCODE 556411 ENCODE Consortium Analysis Working Group 184a4a65c0bd447f90055b014d4e2e95 https://www.encodeproject.org/files/ENCFF002CXB/@@download/ENCFF002CXB.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF308IXJ bed narrowPeak optimal idr thresholded peaks ENCSR000EGI ChIP-seq EFO:0002067 K562 cell line Homo sapiens MAFF-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF583NBG, ENCFF755LJZ, ENCFF864KPF 460910 ENCODE Processing Pipeline 681c4962a27c4e34b59fc8490e917288 https://www.encodeproject.org/files/ENCFF308IXJ/@@download/ENCFF308IXJ.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DDP bed narrowPeak optimal idr thresholded peaks ENCSR000DXD ChIP-seq CL:0002306 epithelial cell of proximal tubule primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HWB, ENCFF001HWC 1158472 ENCODE Consortium Analysis Working Group 523f053e43d5ec00ebc98b367ea08e54 https://www.encodeproject.org/files/ENCFF002DDP/@@download/ENCFF002DDP.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth ENCFF470PNM bed narrowPeak optimal idr thresholded peaks ENCSR000DXD ChIP-seq CL:0002306 epithelial cell of proximal tubule primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF077RDH, ENCFF447AUB, ENCFF943ZQC 985515 ENCODE Processing Pipeline a32833a04672558d1873a39e47f77f68 https://www.encodeproject.org/files/ENCFF470PNM/@@download/ENCFF470PNM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth ENCFF002DBG bed narrowPeak optimal idr thresholded peaks ENCSR000DMM ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MYC-human DNA see document see document False 2012-08-27 ENCODE 493971 ENCODE Consortium Analysis Working Group d958e2990ab4f5d6521c1dd479c8380a https://www.encodeproject.org/files/ENCFF002DBG/@@download/ENCFF002DBG.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from poor library complexity ENCFF682AWN bed narrowPeak optimal idr thresholded peaks ENCSR000DMM ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens MYC-human DNA see document see document False 2012-08-27 ENCODE 1, 2 ENCFF001TDO, ENCFF434LJJ, ENCFF673PRZ, ENCFF844RNW 489114 ENCODE Processing Pipeline 2e5f5e8319184cefc7e36f4668843e09 https://www.encodeproject.org/files/ENCFF682AWN/@@download/ENCFF682AWN.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample poor library complexity ENCFF002CRD bed narrowPeak optimal idr thresholded peaks ENCSR000ECE ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RAD21-human DNA see document see document False 2011-10-29 ENCODE 1287346 ENCODE Consortium Analysis Working Group 5a44b504fef5e1d30de5d83679e442a0 https://www.encodeproject.org/files/ENCFF002CRD/@@download/ENCFF002CRD.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF732XGR bed narrowPeak optimal idr thresholded peaks ENCSR000ECE ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RAD21-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF190MWS, ENCFF656HTA, ENCFF680SHJ 1032500 ENCODE Processing Pipeline 31956512aead9d11c3421ce3768da5a2 https://www.encodeproject.org/files/ENCFF732XGR/@@download/ENCFF732XGR.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DBF bed narrowPeak optimal idr thresholded peaks ENCSR000DMP ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens 17β-estradiol 100 nM 45 minute MYC-human DNA see document see document False 2011-03-17 ENCODE 261259 ENCODE Consortium Analysis Working Group a4163c1c19e13c3d6733f2b633a77109 https://www.encodeproject.org/files/ENCFF002DBF/@@download/ENCFF002DBF.bed.gz hg19 released low read length, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample ENCFF002DBM bed narrowPeak optimal idr thresholded peaks ENCSR000DMV ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1209029 ENCODE Consortium Analysis Working Group 160ceb49b8fe9537a5bbe91df7dd428a https://www.encodeproject.org/files/ENCFF002DBM/@@download/ENCFF002DBM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF002CYV bed narrowPeak optimal idr thresholded peaks ENCSR000DOT ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens ethanol 0.01 percent 36.0 hour FOS-human DNA see document see document False 2012-05-14 ENCODE 1310209 ENCODE Consortium Analysis Working Group 4de8383174f7c0b80d32d300a6cb8216 https://www.encodeproject.org/files/ENCFF002CYV/@@download/ENCFF002CYV.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization missing derived_from, duplicate lane review, biological replicates with identical biosample ENCFF374FKH bed narrowPeak optimal idr thresholded peaks ENCSR000DOT ChIP-seq EFO:0001200 MCF 10A cell line Homo sapiens ethanol 0.01 percent 36.0 hour FOS-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF099KUG, ENCFF581HNC, ENCFF658PKF 1202193 ENCODE Processing Pipeline c4ab2acaa7200fb9186d11f8cd36679d https://www.encodeproject.org/files/ENCFF374FKH/@@download/ENCFF374FKH.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization duplicate lane review, biological replicates with identical biosample ENCFF002CZN bed narrowPeak optimal idr thresholded peaks ENCSR000EWU ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens ZNF217-human DNA see document see document False 2011-10-29 ENCODE 258184 ENCODE Consortium Analysis Working Group 3bb1a2b50508c062084f4916f14d2b83 https://www.encodeproject.org/files/ENCFF002CZN/@@download/ENCFF002CZN.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002DAS bed narrowPeak optimal idr thresholded peaks ENCSR000DLJ ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens POLR2A-human DNA see document see document False 2011-03-17 ENCODE 285136 ENCODE Consortium Analysis Working Group 2aad5d993c8515e169cb23f95352a1f0 https://www.encodeproject.org/files/ENCFF002DAS/@@download/ENCFF002DAS.bed.gz hg19 archived low read length, low read depth missing derived_from control extremely low read depth ENCFF002CLE bed narrowPeak optimal idr thresholded peaks ENCSR000BJN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 346642 ENCODE Consortium Analysis Working Group fff8ca7b7979ca058d515c69e974c367 https://www.encodeproject.org/files/ENCFF002CLE/@@download/ENCFF002CLE.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF345GZF bed narrowPeak optimal idr thresholded peaks ENCSR000BJN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens TAF1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF243XCD, ENCFF602IZZ, ENCFF999FLX 299587 ENCODE Processing Pipeline 832d28b82a0ce751fca92ccb2b2b795e https://www.encodeproject.org/files/ENCFF345GZF/@@download/ENCFF345GZF.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002CKX bed narrowPeak optimal idr thresholded peaks ENCSR000BJM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 540805 ENCODE Consortium Analysis Working Group ce06a76967ec69ad203d94a245f579bf https://www.encodeproject.org/files/ENCFF002CKX/@@download/ENCFF002CKX.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from insufficient read depth ENCFF992LSQ bed narrowPeak optimal idr thresholded peaks ENCSR000BJM ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF078TDL, ENCFF680IKB, ENCFF856HRW 517708 ENCODE Processing Pipeline 81d6b8fdb37687f1bf9564bd4fc59102 https://www.encodeproject.org/files/ENCFF992LSQ/@@download/ENCFF992LSQ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CMF bed narrowPeak optimal idr thresholded peaks ENCSR000BMW ChIP-seq EFO:0002067 K562 cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 312017 ENCODE Consortium Analysis Working Group efd79bfac03aaccd0ab8859080c6ee93 https://www.encodeproject.org/files/ENCFF002CMF/@@download/ENCFF002CMF.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity missing derived_from, biological replicates with identical biosample control insufficient read depth, insufficient read depth, poor library complexity, severe bottlenecking ENCFF558VPP bed narrowPeak optimal idr thresholded peaks ENCSR000BMW ChIP-seq EFO:0002067 K562 cell line Homo sapiens REST-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF051ITR, ENCFF621KLV, ENCFF764CZH 239761 ENCODE Processing Pipeline 810c09de8b3c3fe318e8643e8c5b7e2a https://www.encodeproject.org/files/ENCFF558VPP/@@download/ENCFF558VPP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample control insufficient read depth, insufficient read depth, poor library complexity, severe bottlenecking ENCFF002DDB bed narrowPeak optimal idr thresholded peaks ENCSR000DUS ChIP-seq CL:0002327 mammary epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001HOZ, ENCFF001HPC 1121096 ENCODE Consortium Analysis Working Group 7622c2ed39a4594c2627b39e8f2a5075 https://www.encodeproject.org/files/ENCFF002DDB/@@download/ENCFF002DDB.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms ENCFF288RFS bed narrowPeak optimal idr thresholded peaks ENCSR000DUS ChIP-seq CL:0002327 mammary epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF924YJI, ENCFF929WKT, ENCFF938HQH 889632 ENCODE Processing Pipeline 7ce3d71abd0220f4289d7b0aced11dc4 https://www.encodeproject.org/files/ENCFF288RFS/@@download/ENCFF288RFS.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms ENCFF033EBX bed narrowPeak optimal idr thresholded peaks ENCSR000BNW ChIP-seq EFO:0002067 K562 cell line Homo sapiens SIX5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF066ONU, ENCFF521MOS, ENCFF738BIG 62476 ENCODE Processing Pipeline 097bf841440b7b7f1ef9cb01097fd511 https://www.encodeproject.org/files/ENCFF033EBX/@@download/ENCFF033EBX.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample insufficient read depth ENCFF002CSF bed narrowPeak optimal idr thresholded peaks ENCSR000ECM ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens RCOR1-human DNA see document see document False 2012-05-14 ENCODE 394882 ENCODE Consortium Analysis Working Group e7c99d8ef0836c01ae22ce43c8fbe510 https://www.encodeproject.org/files/ENCFF002CSF/@@download/ENCFF002CSF.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from ENCFF002CDP bed narrowPeak optimal idr thresholded peaks ENCSR000AKB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1005226 ENCODE Consortium Analysis Working Group 9c53d27a4d8c71629f8c1ebc059a8ff4 https://www.encodeproject.org/files/ENCFF002CDP/@@download/ENCFF002CDP.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, low read depth, mixed read lengths missing derived_from control insufficient read depth, insufficient read depth ENCFF833FTF bed narrowPeak optimal idr thresholded peaks ENCSR000AKB ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF551KNM, ENCFF706QLS, ENCFF934NEI 655789 ENCODE Processing Pipeline 265cfe705263baae508111a4114aab61 https://www.encodeproject.org/files/ENCFF833FTF/@@download/ENCFF833FTF.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, low read depth, mixed read lengths control insufficient read depth, insufficient read depth ENCFF002CRW bed narrowPeak optimal idr thresholded peaks ENCSR000EDB ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens BRCA1-human DNA see document see document False 2011-10-29 ENCODE 211374 ENCODE Consortium Analysis Working Group db45e389b7cf2fe24e3b9151c2c27b26 https://www.encodeproject.org/files/ENCFF002CRW/@@download/ENCFF002CRW.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002DCJ bed narrowPeak optimal idr thresholded peaks ENCSR000DRP ChIP-seq EFO:0001160 GM12873 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2, 3 ENCFF001HFV, ENCFF001HFX, ENCFF001HGD 1028403 ENCODE Consortium Analysis Working Group 48b1254a59a376a9f198227e6e12d5c4 https://www.encodeproject.org/files/ENCFF002DCJ/@@download/ENCFF002DCJ.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity missing raw data in replicate insufficient read depth missing control alignments ENCFF295AWO bed narrowPeak optimal idr thresholded peaks ENCSR000DRP ChIP-seq EFO:0001160 GM12873 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 3 ENCFF001TDO, ENCFF247DGH, ENCFF380UJY, ENCFF728WXF 816014 ENCODE Processing Pipeline 5a6de8426a7aa0847344dedf53b3ab41 https://www.encodeproject.org/files/ENCFF295AWO/@@download/ENCFF295AWO.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity missing raw data in replicate insufficient read depth missing control alignments ENCFF002CRG bed narrowPeak optimal idr thresholded peaks ENCSR000EUQ ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SUZ12-human DNA see document see document False 2011-10-29 ENCODE 121074 ENCODE Consortium Analysis Working Group 0c6b969de303af1a6f5dbe057e9aaacc https://www.encodeproject.org/files/ENCFF002CRG/@@download/ENCFF002CRG.bed.gz hg19 archived borderline replicate concordance, low read depth biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length ENCFF062SBW bed narrowPeak optimal idr thresholded peaks ENCSR000EUQ ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SUZ12-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF380NLL, ENCFF651DQM, ENCFF940PJA 76539 ENCODE Processing Pipeline 0ceda548faa288b705b6a4c1090317b6 https://www.encodeproject.org/files/ENCFF062SBW/@@download/ENCFF062SBW.bed.gz hg19 released borderline replicate concordance, low read depth biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CZO bed narrowPeak optimal idr thresholded peaks ENCSR000EHR ChIP-seq EFO:0002798 NB4 cell line Homo sapiens MYC-human DNA see document see document False 2011-10-29 ENCODE 642994 ENCODE Consortium Analysis Working Group 57ca7f5aea6377a2d1fef98fef2facd7 https://www.encodeproject.org/files/ENCFF002CZO/@@download/ENCFF002CZO.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CHX bed narrowPeak optimal idr thresholded peaks ENCSR000BQZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens STAT5A-human DNA see document see document False 2012-02-29 ENCODE 165707 ENCODE Consortium Analysis Working Group 8d8a5ea1ca26b64a1b032cd30579244c https://www.encodeproject.org/files/ENCFF002CHX/@@download/ENCFF002CHX.bed.gz hg19 archived low read length, inconsistent platforms missing derived_from, biological replicates with identical biosample ENCFF492YMU bed narrowPeak optimal idr thresholded peaks ENCSR000BQZ ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens STAT5A-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF447TGK, ENCFF772NOR, ENCFF876BBG 198904 ENCODE Processing Pipeline c5f6d5dee5e25313d5e5dd85604244b8 https://www.encodeproject.org/files/ENCFF492YMU/@@download/ENCFF492YMU.bed.gz hg19 released low read length, inconsistent platforms biological replicates with identical biosample ENCFF002DCD bed narrowPeak optimal idr thresholded peaks ENCSR000DQN ChIP-seq EFO:0001099 Caco-2 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001GZV, ENCFF001HAC 955846 ENCODE Consortium Analysis Working Group 2b14a190e67d2dffff232a8955932ef7 https://www.encodeproject.org/files/ENCFF002DCD/@@download/ENCFF002DCD.bed.gz hg19 archived moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth insufficient read depth, severe bottlenecking ENCFF882YQH bed narrowPeak optimal idr thresholded peaks ENCSR000DQN ChIP-seq EFO:0001099 Caco-2 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF146XLM, ENCFF450FYB, ENCFF532LQQ 759010 ENCODE Processing Pipeline 7251e79d7216a84cc06fd9967db74d19 https://www.encodeproject.org/files/ENCFF882YQH/@@download/ENCFF882YQH.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth insufficient read depth, severe bottlenecking ENCFF002CRU bed narrowPeak optimal idr thresholded peaks ENCSR000EDL ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens SMARCC2-human DNA see document see document False 2011-10-29 ENCODE 67877 ENCODE Consortium Analysis Working Group 432720a3a0a34aa53a659fba38833fbe https://www.encodeproject.org/files/ENCFF002CRU/@@download/ENCFF002CRU.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CHE bed narrowPeak optimal idr thresholded peaks ENCSR000BRH ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MTA3-human DNA see document see document False 2012-02-29 ENCODE 278252 ENCODE Consortium Analysis Working Group 82bd6f9b6af45c6d54c8a54938b9ad60 https://www.encodeproject.org/files/ENCFF002CHE/@@download/ENCFF002CHE.bed.gz hg19 archived low read length, borderline replicate concordance, inconsistent platforms missing derived_from, biological replicates with identical biosample ENCFF413VUC bed narrowPeak optimal idr thresholded peaks ENCSR000BRH ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MTA3-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF496UYK, ENCFF574RLW, ENCFF600RTA 322940 ENCODE Processing Pipeline 986211e162ebe80002d15d053f4e37f8 https://www.encodeproject.org/files/ENCFF413VUC/@@download/ENCFF413VUC.bed.gz hg19 released low read length, borderline replicate concordance, inconsistent platforms biological replicates with identical biosample ENCFF002CZU bed narrowPeak optimal idr thresholded peaks ENCSR000EXL ChIP-seq EFO:0002713 Panc1 cell line Homo sapiens TCF7L2-human DNA see document see document False 2011-10-29 ENCODE 293784 ENCODE Consortium Analysis Working Group 015fc48737494dafbc1f83414136a0d5 https://www.encodeproject.org/files/ENCFF002CZU/@@download/ENCFF002CZU.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms missing derived_from, biological replicates with identical biosample ENCFF835LPJ bed narrowPeak optimal idr thresholded peaks ENCSR000EXL ChIP-seq EFO:0002713 Panc1 cell line Homo sapiens TCF7L2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF287WRJ, ENCFF349TEE, ENCFF449DID 334695 ENCODE Processing Pipeline fc1aebabccf0ab50b0c6d56b89b23309 https://www.encodeproject.org/files/ENCFF835LPJ/@@download/ENCFF835LPJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms biological replicates with identical biosample ENCFF507XOB bed narrowPeak optimal idr thresholded peaks ENCSR000AUC ChIP-seq EFO:0002067 K562 cell line Homo sapiens SUZ12-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF692UFO, ENCFF731WWO, ENCFF809XWY 55253 ENCODE Processing Pipeline cb67e6e280eb53c71e244ba182a543c1 https://www.encodeproject.org/files/ENCFF507XOB/@@download/ENCFF507XOB.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, mixed read lengths missing raw data in replicate insufficient read depth, poor library complexity, insufficient replicate concordance, severe bottlenecking ENCFF002CTP bed narrowPeak optimal idr thresholded peaks ENCSR000ECO ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens ZNF143-human DNA see document see document False 2011-10-29 ENCODE 181234 ENCODE Consortium Analysis Working Group 5dad024c53e1b5eac7fb473933432908 https://www.encodeproject.org/files/ENCFF002CTP/@@download/ENCFF002CTP.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CZK bed narrowPeak optimal idr thresholded peaks ENCSR000EWS ChIP-seq EFO:0001203 MCF-7 cell line Homo sapiens GATA3-human DNA see document see document False 2012-05-14 ENCODE 309354 ENCODE Consortium Analysis Working Group f033be2179122e4ba03dac8731653c5b https://www.encodeproject.org/files/ENCFF002CZK/@@download/ENCFF002CZK.bed.gz hg19 released low read length, mixed read lengths missing derived_from, biological replicates with identical biosample insufficient read length ENCFF618DDO bed narrowPeak optimal idr thresholded peaks ENCSR822CEA ChIP-seq CL:0002319 neural cell in vitro differentiated cells Homo sapiens CTCF-human DNA False 2014-07-07 ENCODE 1, 2 ENCFF001TDO, ENCFF496NEE, ENCFF762DPO, ENCFF900WDP 896089 ENCODE Processing Pipeline dd513e682e5bfda211bce2fc3140257c https://www.encodeproject.org/files/ENCFF618DDO/@@download/ENCFF618DDO.bed.gz hg19 released mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption experiment not submitted to GEO poor library complexity, severe bottlenecking ENCFF002CLX bed narrowPeak optimal idr thresholded peaks ENCSR000BKQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ETS1-human DNA see document see document False 2011-07-18 ENCODE 212269 ENCODE Consortium Analysis Working Group 351582bb9b47db34b6c4e31180a91d50 https://www.encodeproject.org/files/ENCFF002CLX/@@download/ENCFF002CLX.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample control insufficient read depth ENCFF076YZO bed narrowPeak optimal idr thresholded peaks ENCSR000BKQ ChIP-seq EFO:0002067 K562 cell line Homo sapiens ETS1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF122POU, ENCFF128BVU, ENCFF927YRG 214196 ENCODE Processing Pipeline 124c1fdf52bdb35192e1849070affed9 https://www.encodeproject.org/files/ENCFF076YZO/@@download/ENCFF076YZO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample control insufficient read depth ENCFF002CYK bed narrowPeak optimal idr thresholded peaks ENCSR000EHA ChIP-seq EFO:0002067 K562 cell line Homo sapiens TBP-human DNA see document see document False 2011-10-29 ENCODE 452402 ENCODE Consortium Analysis Working Group 679423057e1c8b5be5b7229891b84cb2 https://www.encodeproject.org/files/ENCFF002CYK/@@download/ENCFF002CYK.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF380FJL bed narrowPeak optimal idr thresholded peaks ENCSR000EHA ChIP-seq EFO:0002067 K562 cell line Homo sapiens TBP-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF523ODF, ENCFF545FAT, ENCFF891AHH 395661 ENCODE Processing Pipeline 119c19af83bd82e64f13fb0805f4b209 https://www.encodeproject.org/files/ENCFF380FJL/@@download/ENCFF380FJL.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF632NQI bed narrowPeak optimal idr thresholded peaks ENCSR000EFT ChIP-seq EFO:0002067 K562 cell line Homo sapiens GATA1-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF234GQW, ENCFF253DCO, ENCFF916MQB 261856 ENCODE Processing Pipeline e0454bcca2f35d6ec9a1ad5aca4d6ebc https://www.encodeproject.org/files/ENCFF632NQI/@@download/ENCFF632NQI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CSZ bed narrowPeak optimal idr thresholded peaks ENCSR000ECT ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens POLR2AphosphoS2-human DNA see document see document False 2011-10-29 ENCODE 328935 ENCODE Consortium Analysis Working Group 302bdb27fefe454afd34b62886abf170 https://www.encodeproject.org/files/ENCFF002CSZ/@@download/ENCFF002CSZ.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CLZ bed narrowPeak optimal idr thresholded peaks ENCSR000BLO ChIP-seq EFO:0002067 K562 cell line Homo sapiens GABPA-human DNA see document see document False 2011-07-18 ENCODE 290707 ENCODE Consortium Analysis Working Group e81f2714fb61f80af419bc5e45682868 https://www.encodeproject.org/files/ENCFF002CLZ/@@download/ENCFF002CLZ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample, missing derived_from control insufficient read depth, insufficient read depth, poor library complexity, severe bottlenecking ENCFF833FCO bed narrowPeak optimal idr thresholded peaks ENCSR000BLO ChIP-seq EFO:0002067 K562 cell line Homo sapiens GABPA-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF276DPB, ENCFF442HXQ, ENCFF961HHN 265021 ENCODE Processing Pipeline c99ce128576687bc8a287943d3473029 https://www.encodeproject.org/files/ENCFF833FCO/@@download/ENCFF833FCO.bed.gz hg19 released low read length, mild to moderate bottlenecking, moderate library complexity biological replicates with identical biosample control insufficient read depth, insufficient read depth, poor library complexity, severe bottlenecking ENCFF495YRW bed narrowPeak optimal idr thresholded peaks ENCSR000BJT ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF810TPO, ENCFF900AOD, ENCFF918SQN 187680 ENCODE Processing Pipeline da6ed4c9e0e8cd425a6062a294c924dd https://www.encodeproject.org/files/ENCFF495YRW/@@download/ENCFF495YRW.bed.gz hg19 released control low read depth, low read length, low read depth biological replicates with identical biosample insufficient read depth ENCFF002CYO bed narrowPeak optimal idr thresholded peaks ENCSR000EFZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens UBTF-human DNA see document see document False 2012-05-14 ENCODE 351292 ENCODE Consortium Analysis Working Group 44267b4dcba8700327baacc860fcbc08 https://www.encodeproject.org/files/ENCFF002CYO/@@download/ENCFF002CYO.bed.gz hg19 archived low read length, low read depth, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF671DOL bed narrowPeak optimal idr thresholded peaks ENCSR000EFZ ChIP-seq EFO:0002067 K562 cell line Homo sapiens UBTF-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF507ZLI, ENCFF512HLJ, ENCFF621XGL 356609 ENCODE Processing Pipeline 64dc4d3e4a826b90341dc7f40f98f446 https://www.encodeproject.org/files/ENCFF671DOL/@@download/ENCFF671DOL.bed.gz hg19 released low read length, low read depth, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CEF bed narrowPeak optimal idr thresholded peaks ENCSR000ANS ChIP-seq CL:0002372 myotube in vitro differentiated cells Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 962316 ENCODE Consortium Analysis Working Group f40df1c037735f92207b24ec5333b3db https://www.encodeproject.org/files/ENCFF002CEF/@@download/ENCFF002CEF.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, NTR biosample insufficient read depth missing control alignments ENCFF448MBM bed narrowPeak optimal idr thresholded peaks ENCSR000ANS ChIP-seq CL:0002372 myotube in vitro differentiated cells Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF004UUL, ENCFF315KYG, ENCFF752POC 727915 ENCODE Processing Pipeline 159eaf588d42788b8035074162a5131a https://www.encodeproject.org/files/ENCFF448MBM/@@download/ENCFF448MBM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity NTR biosample insufficient read depth missing control alignments ENCFF002CTC bed narrowPeak optimal idr thresholded peaks ENCSR000ECX ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens RFX5-human DNA see document see document False 2011-10-29 ENCODE 491540 ENCODE Consortium Analysis Working Group fd13b9cd1c4c3c3b238a627f35349f2f https://www.encodeproject.org/files/ENCFF002CTC/@@download/ENCFF002CTC.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CTH bed narrowPeak optimal idr thresholded peaks ENCSR000EDC ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens STAT3-human DNA see document see document False 2011-10-29 ENCODE 348525 ENCODE Consortium Analysis Working Group 9d04aa699bf6a49606986f1798d9d4f8 https://www.encodeproject.org/files/ENCFF002CTH/@@download/ENCFF002CTH.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CUA bed narrowPeak optimal idr thresholded peaks ENCSR000EEW ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens forskolin and pyruvate 6.0 hour ESRRA-human DNA see document see document False 2011-10-29 ENCODE 26113 ENCODE Consortium Analysis Working Group 07cbe352ae64551deba3c8aaf9c673ce https://www.encodeproject.org/files/ENCFF002CUA/@@download/ENCFF002CUA.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CVQ bed narrowPeak optimal idr thresholded peaks ENCSR000EGV ChIP-seq EFO:0002067 K562 cell line Homo sapiens BHLHE40-human DNA see document see document False 2011-10-29 ENCODE 558105 ENCODE Consortium Analysis Working Group bc87d5c569c83dc64331f326019fb4d7 https://www.encodeproject.org/files/ENCFF002CVQ/@@download/ENCFF002CVQ.bed.gz hg19 archived low read length, inconsistent target of control experiment duplicate lane review, biological replicates with identical biosample, missing derived_from ENCFF179NDS bed narrowPeak optimal idr thresholded peaks ENCSR000EGV ChIP-seq EFO:0002067 K562 cell line Homo sapiens BHLHE40-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF077KRK, ENCFF159GKF, ENCFF368XWG 491465 ENCODE Processing Pipeline 8a7b06a474913c6365c15ef047a6db83 https://www.encodeproject.org/files/ENCFF179NDS/@@download/ENCFF179NDS.bed.gz hg19 released low read length, inconsistent target of control experiment duplicate lane review, biological replicates with identical biosample ENCFF002CSS bed narrowPeak optimal idr thresholded peaks ENCSR000ECL ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MAZ-human DNA see document see document False 2012-05-14 ENCODE 347669 ENCODE Consortium Analysis Working Group 90db788031b3e93cd69f1dcdac0ece8a https://www.encodeproject.org/files/ENCFF002CSS/@@download/ENCFF002CSS.bed.gz hg19 released low read length, inconsistent platforms missing derived_from, biological replicates with identical biosample ENCFF002DBU bed narrowPeak optimal idr thresholded peaks ENCSR000DPF ChIP-seq EFO:0001086 A549 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001GVI, ENCFF001GVJ 967359 ENCODE Consortium Analysis Working Group fa369882e7ed1a19021d3f1729c4c598 https://www.encodeproject.org/files/ENCFF002DBU/@@download/ENCFF002DBU.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth poor library complexity, severe bottlenecking extremely low read depth ENCFF944VAE bed narrowPeak optimal idr thresholded peaks ENCSR000DPF ChIP-seq EFO:0001086 A549 cell line Homo sapiens CTCF-human DNA see document see document False 2012-01-17 ENCODE 1, 2 ENCFF001TDO, ENCFF096GLZ, ENCFF115DAO, ENCFF605UGV 742448 ENCODE Processing Pipeline 27944057da59b906cd704d994fbe20b7 https://www.encodeproject.org/files/ENCFF944VAE/@@download/ENCFF944VAE.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth poor library complexity, severe bottlenecking extremely low read depth ENCFF002CEV bed narrowPeak optimal idr thresholded peaks ENCSR000AQJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens SAP30-human DNA see document see document False 2012-03-06 ENCODE 217610 ENCODE Consortium Analysis Working Group a5df7c305af05ffe464e505e160dd1d5 https://www.encodeproject.org/files/ENCFF002CEV/@@download/ENCFF002CEV.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth biological replicates with identical biosample, missing derived_from, missing raw data in replicate insufficient read depth, poor library complexity, severe bottlenecking ENCFF718NUA bed narrowPeak optimal idr thresholded peaks ENCSR000AQJ ChIP-seq EFO:0002067 K562 cell line Homo sapiens SAP30-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF081GEA, ENCFF643AZY, ENCFF956WWZ 249328 ENCODE Processing Pipeline 994d55aff4a2588ec824b795125a1166 https://www.encodeproject.org/files/ENCFF718NUA/@@download/ENCFF718NUA.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth biological replicates with identical biosample, missing raw data in replicate insufficient read depth, poor library complexity, severe bottlenecking ENCFF002CMH bed narrowPeak optimal idr thresholded peaks ENCSR000BKR ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 482481 ENCODE Consortium Analysis Working Group 30682bdafd5195e37a07eb7a47a18ebf https://www.encodeproject.org/files/ENCFF002CMH/@@download/ENCFF002CMH.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from control insufficient read depth, insufficient read depth ENCFF542DOG bed narrowPeak optimal idr thresholded peaks ENCSR000BKR ChIP-seq EFO:0002067 K562 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF065RJC, ENCFF306TSB, ENCFF519QQX 498177 ENCODE Processing Pipeline 0598e742722b3d8250df0367c201924d https://www.encodeproject.org/files/ENCFF542DOG/@@download/ENCFF542DOG.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample control insufficient read depth, insufficient read depth ENCFF002CTJ bed narrowPeak optimal idr thresholded peaks ENCSR000EVF ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens TCF7L2-human DNA see document see document False 2011-10-29 ENCODE 76399 ENCODE Consortium Analysis Working Group 2e76c88be228740a9d90c18ab9105425 https://www.encodeproject.org/files/ENCFF002CTJ/@@download/ENCFF002CTJ.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CNB bed narrowPeak optimal idr thresholded peaks ENCSR000BOV ChIP-seq EFO:0002713 Panc1 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 250789 ENCODE Consortium Analysis Working Group ad00d66bbffee15754ff260bf663a073 https://www.encodeproject.org/files/ENCFF002CNB/@@download/ENCFF002CNB.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample ENCFF686GFT bed narrowPeak optimal idr thresholded peaks ENCSR000BOV ChIP-seq EFO:0002713 Panc1 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF362UBD, ENCFF664OBH, ENCFF706ZMD 467634 ENCODE Processing Pipeline ca32ff65d16feff62a5b3eae56a6512f https://www.encodeproject.org/files/ENCFF686GFT/@@download/ENCFF686GFT.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF598ZLV bed narrowPeak optimal idr thresholded peaks ENCSR000BSK ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens JUND-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF101JCE, ENCFF514HVB, ENCFF866YBG 676842 ENCODE Processing Pipeline 3f6042bd4ab7bb38270b70206d900dd3 https://www.encodeproject.org/files/ENCFF598ZLV/@@download/ENCFF598ZLV.bed.gz hg19 released biological replicates with identical biosample missing control alignments ENCFF002CEO bed narrowPeak optimal idr thresholded peaks ENCSR000AQG ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC2-human DNA see document see document False 2012-03-06 ENCODE 121425 ENCODE Consortium Analysis Working Group 636ef8b5c6f6f03df33fbf7456260d38 https://www.encodeproject.org/files/ENCFF002CEO/@@download/ENCFF002CEO.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing derived_from ENCFF657VJX bed narrowPeak optimal idr thresholded peaks ENCSR000AQG ChIP-seq EFO:0002067 K562 cell line Homo sapiens HDAC2-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF233XEO, ENCFF680CDC, ENCFF930KIS 93415 ENCODE Processing Pipeline e7464d52ba1f458c1b5e6a0c4a1cfecd https://www.encodeproject.org/files/ENCFF657VJX/@@download/ENCFF657VJX.bed.gz hg19 released borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth ENCFF002CSQ bed narrowPeak optimal idr thresholded peaks ENCSR000ECK ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MAFK-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF000XGS, ENCFF000XGT 365040 ENCODE Consortium Analysis Working Group 99d5d60d4701464dd198090fa82bf9e1 https://www.encodeproject.org/files/ENCFF002CSQ/@@download/ENCFF002CSQ.bed.gz hg19 archived low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, inconsistent mapped reads lengths ENCFF405BKG bed narrowPeak optimal idr thresholded peaks ENCSR000ECK ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MAFK-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF123SPG, ENCFF742HOV, ENCFF796KTU 323459 ENCODE Processing Pipeline 883649f54d85c599af51713df8eb0cf7 https://www.encodeproject.org/files/ENCFF405BKG/@@download/ENCFF405BKG.bed.gz hg19 released low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, inconsistent mapped reads lengths ENCFF126CZP bed narrowPeak optimal idr thresholded peaks ENCSR000AUZ ChIP-seq CL:0000236 B cell primary cell Homo sapiens EZH2-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF499CWW, ENCFF755RMC, ENCFF814VNW 52060 ENCODE Processing Pipeline 225d1f6f7e7aff79d4fd72818320f140 https://www.encodeproject.org/files/ENCFF126CZP/@@download/ENCFF126CZP.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity poor library complexity, severe bottlenecking extremely low read depth ENCFF587OBC bed narrowPeak optimal idr thresholded peaks ENCSR000BUW ChIP-seq EFO:0002793 HL-60 cell line Homo sapiens SPI1-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF214RQX, ENCFF446FKN, ENCFF670PLH 1034005 ENCODE Processing Pipeline cba9d4271e9a0b4f2f4e5cdbdb04fa29 https://www.encodeproject.org/files/ENCFF587OBC/@@download/ENCFF587OBC.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth biological replicates with identical biosample ENCFF002CLT bed narrowPeak optimal idr thresholded peaks ENCSR000BNK ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTCFL-human DNA see document see document False 2011-07-18 ENCODE 223604 ENCODE Consortium Analysis Working Group be3ab73eefd11e9244d32e5ff3f9e878 https://www.encodeproject.org/files/ENCFF002CLT/@@download/ENCFF002CLT.bed.gz hg19 archived low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from poor library complexity, insufficient read depth, severe bottlenecking extremely low read depth, missing control alignments ENCFF962FQM bed narrowPeak optimal idr thresholded peaks ENCSR000BNK ChIP-seq EFO:0002067 K562 cell line Homo sapiens CTCFL-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF035SJF, ENCFF233FNU, ENCFF504VLL 216173 ENCODE Processing Pipeline 317367ecb7b8653dcc677b264e32d6d4 https://www.encodeproject.org/files/ENCFF962FQM/@@download/ENCFF962FQM.bed.gz hg19 released low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity biological replicates with identical biosample poor library complexity, insufficient read depth, severe bottlenecking extremely low read depth, missing control alignments ENCFF002CUG bed narrowPeak optimal idr thresholded peaks ENCSR000EEC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAFF-human DNA see document see document False 2011-10-29 ENCODE 899877 ENCODE Consortium Analysis Working Group 30bb0d0ccfc211e2cda914387df1789f https://www.encodeproject.org/files/ENCFF002CUG/@@download/ENCFF002CUG.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF684ASX bed narrowPeak optimal idr thresholded peaks ENCSR000EEC ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAFF-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF003CWL, ENCFF175OAK, ENCFF611VKE 830843 ENCODE Processing Pipeline 78e68fd09e381d00943cc88af76f83b7 https://www.encodeproject.org/files/ENCFF684ASX/@@download/ENCFF684ASX.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002CTV bed narrowPeak optimal idr thresholded peaks ENCSR000EEX ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens forskolin and pyruvate 6.0 hour CEBPB-human DNA see document see document False 2011-10-29 ENCODE 354905 ENCODE Consortium Analysis Working Group bb8883f34158c90f74f0db1fbee71fcb https://www.encodeproject.org/files/ENCFF002CTV/@@download/ENCFF002CTV.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CUF bed narrowPeak optimal idr thresholded peaks ENCSR000EEI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens JUND-human DNA see document see document False 2011-10-29 ENCODE 794821 ENCODE Consortium Analysis Working Group 3fce70d8366cc2820ce9610b64690f83 https://www.encodeproject.org/files/ENCFF002CUF/@@download/ENCFF002CUF.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF085GOJ bed narrowPeak optimal idr thresholded peaks ENCSR000EEI ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens JUND-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF185JWL, ENCFF716IBZ, ENCFF951EMI 714125 ENCODE Processing Pipeline 88fcc0c2c3af76c5a6ecc6e6f7cc3b2c https://www.encodeproject.org/files/ENCFF085GOJ/@@download/ENCFF085GOJ.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DDR bed narrowPeak optimal idr thresholded peaks ENCSR000DXQ ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HXH, ENCFF001HXM 1039198 ENCODE Consortium Analysis Working Group 6801e70f2927cea7c72e99d45ebc7727 https://www.encodeproject.org/files/ENCFF002DDR/@@download/ENCFF002DDR.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth ENCFF316NHY bed narrowPeak optimal idr thresholded peaks ENCSR000DXQ ChIP-seq EFO:0003072 SK-N-SH cell line Homo sapiens all-trans-retinoic acid 6 μM 48 hour CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF020JUP, ENCFF359EWI, ENCFF655SOH 815709 ENCODE Processing Pipeline 84970e70aa32e04a1ed816bdb3e001b6 https://www.encodeproject.org/files/ENCFF316NHY/@@download/ENCFF316NHY.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth ENCFF628RLE bed narrowPeak optimal idr thresholded peaks ENCSR000AVA ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CHD7-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF061FAC, ENCFF532HJO, ENCFF791IYQ 124647 ENCODE Processing Pipeline aa2db3fc9463f50dc7d4355659b1e0c8 https://www.encodeproject.org/files/ENCFF628RLE/@@download/ENCFF628RLE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity insufficient replicate concordance ENCFF687NII bed narrowPeak optimal idr thresholded peaks ENCSR000ATK ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens PHF8-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF102HLC, ENCFF103CHJ, ENCFF180QIK 395597 ENCODE Processing Pipeline a4637b1ddc963d77f016a7ee2a675935 https://www.encodeproject.org/files/ENCFF687NII/@@download/ENCFF687NII.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity ENCFF002CJI bed narrowPeak optimal idr thresholded peaks ENCSR000BIS ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SIN3A-human DNA see document see document False 2011-07-18 ENCODE 172732 ENCODE Consortium Analysis Working Group b61359273fea3d424d3f5c67bf8bde7c https://www.encodeproject.org/files/ENCFF002CJI/@@download/ENCFF002CJI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample ENCFF820OMK bed narrowPeak optimal idr thresholded peaks ENCSR000BIS ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens SIN3A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF347PIM, ENCFF490MZG, ENCFF605LQA 255908 ENCODE Processing Pipeline 23a7613b25af81f5dbf2037400bca991 https://www.encodeproject.org/files/ENCFF820OMK/@@download/ENCFF820OMK.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF348RKC bed narrowPeak optimal idr thresholded peaks ENCSR000BPE ChIP-seq EFO:0001086 A549 cell line Homo sapiens ethanol 0.02 percent 1 hour SP1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF075ZQI, ENCFF753PAD, ENCFF831GEW 761123 ENCODE Processing Pipeline e5f585bcfb86b66fb3b638e3e0a04b73 https://www.encodeproject.org/files/ENCFF348RKC/@@download/ENCFF348RKC.bed.gz hg19 released low read length biological replicates with identical biosample ENCFF002CMD bed narrowPeak optimal idr thresholded peaks ENCSR000BNV ChIP-seq EFO:0002067 K562 cell line Homo sapiens MEF2A-human DNA see document see document False 2011-07-18 ENCODE 131373 ENCODE Consortium Analysis Working Group 86f7faf8431745bababf549e8455935e https://www.encodeproject.org/files/ENCFF002CMD/@@download/ENCFF002CMD.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample control insufficient read depth missing control alignments ENCFF577UJR bed narrowPeak optimal idr thresholded peaks ENCSR000BNV ChIP-seq EFO:0002067 K562 cell line Homo sapiens MEF2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF307TQZ, ENCFF435ESC, ENCFF825VQR 22863 ENCODE Processing Pipeline 5e9c735464c7e63dba6ce09405a9eec0 https://www.encodeproject.org/files/ENCFF577UJR/@@download/ENCFF577UJR.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample control insufficient read depth missing control alignments ENCFF002CUB bed narrowPeak optimal idr thresholded peaks ENCSR000EEV ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens forskolin and pyruvate 6.0 hour NR3C1-human DNA see document see document False 2011-10-29 ENCODE 16349 ENCODE Consortium Analysis Working Group 7d2821244ae03f55f8d52105ee912ec3 https://www.encodeproject.org/files/ENCFF002CUB/@@download/ENCFF002CUB.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CMM bed narrowPeak optimal idr thresholded peaks ENCSR000BGX ChIP-seq EFO:0002067 K562 cell line Homo sapiens SIX5-human DNA see document see document False 2011-07-18 ENCODE 94185 ENCODE Consortium Analysis Working Group 1f0494497f4bf36bc3b8cda4c0c37dde https://www.encodeproject.org/files/ENCFF002CMM/@@download/ENCFF002CMM.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF002CJC bed narrowPeak optimal idr thresholded peaks ENCSR000BKK ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens EP300-human DNA see document see document False 2011-07-18 ENCODE 172643 ENCODE Consortium Analysis Working Group 3ba20ad9a7095da9d8291d8161c18e87 https://www.encodeproject.org/files/ENCFF002CJC/@@download/ENCFF002CJC.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample, missing derived_from ENCFF843SYD bed narrowPeak optimal idr thresholded peaks ENCSR000BKK ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens EP300-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF380YEP, ENCFF532VDQ, ENCFF684GVN 241631 ENCODE Processing Pipeline c06ac8027f55d91b669cebbc14184c53 https://www.encodeproject.org/files/ENCFF843SYD/@@download/ENCFF843SYD.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample ENCFF002CJE bed narrowPeak optimal idr thresholded peaks ENCSR000BHN ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 506280 ENCODE Consortium Analysis Working Group 4e11e8ea1d8d30a05af469d92507d4e8 https://www.encodeproject.org/files/ENCFF002CJE/@@download/ENCFF002CJE.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample missing control alignments ENCFF468LYO bed narrowPeak optimal idr thresholded peaks ENCSR000BHN ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens POLR2A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF281JKH, ENCFF389PNH, ENCFF918SPH 654530 ENCODE Processing Pipeline ba4bfac04ac18497eed776496e712a6c https://www.encodeproject.org/files/ENCFF468LYO/@@download/ENCFF468LYO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample missing control alignments ENCFF002CHD bed narrowPeak optimal idr thresholded peaks ENCSR000BNG ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MEF2C-human DNA see document see document False 2011-07-18 ENCODE 180187 ENCODE Consortium Analysis Working Group cc95db1f7a06b5a71c2aa393c3256bac https://www.encodeproject.org/files/ENCFF002CHD/@@download/ENCFF002CHD.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient replicate concordance ENCFF261ZWR bed narrowPeak optimal idr thresholded peaks ENCSR000BNG ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens MEF2C-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF099MXC, ENCFF515LFS, ENCFF815LEF 204157 ENCODE Processing Pipeline 8b99923b94fbef4a4366487ff0ed48f3 https://www.encodeproject.org/files/ENCFF261ZWR/@@download/ENCFF261ZWR.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth, insufficient replicate concordance ENCFF002CNI bed narrowPeak optimal idr thresholded peaks ENCSR000BPL ChIP-seq EFO:0002860 SK-N-MC cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 572707 ENCODE Consortium Analysis Working Group 932f3a2778e0ddb4b1d5f1912a5416ce https://www.encodeproject.org/files/ENCFF002CNI/@@download/ENCFF002CNI.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance missing derived_from, biological replicates with identical biosample ENCFF606TCO bed narrowPeak optimal idr thresholded peaks ENCSR000BPL ChIP-seq EFO:0002860 SK-N-MC cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF152JEO, ENCFF390NBA, ENCFF412ACC 549407 ENCODE Processing Pipeline ef66cc29606f8a3b406239aed011c2d8 https://www.encodeproject.org/files/ENCFF606TCO/@@download/ENCFF606TCO.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance biological replicates with identical biosample ENCFF002CTI bed narrowPeak optimal idr thresholded peaks ENCSR000EDD ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens TBP-human DNA see document see document False 2011-10-29 ENCODE 461868 ENCODE Consortium Analysis Working Group 78449b084d8578fa46731cd08b9efba4 https://www.encodeproject.org/files/ENCFF002CTI/@@download/ENCFF002CTI.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample ENCFF002CFO bed narrowPeak optimal idr thresholded peaks ENCSR000BPX ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 100 nM 1 hour FOXA1-human DNA see document see document False 2012-02-29 ENCODE 204700 ENCODE Consortium Analysis Working Group c0c762bbe57d6947f4cf6f91af263c70 https://www.encodeproject.org/files/ENCFF002CFO/@@download/ENCFF002CFO.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF441MEM bed narrowPeak optimal idr thresholded peaks ENCSR000BPX ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 100 nM 1 hour FOXA1-human DNA see document see document False 2012-02-29 ENCODE 1, 2 ENCFF001TDO, ENCFF119XQX, ENCFF432ZAJ, ENCFF953BDX 161662 ENCODE Processing Pipeline 8ae46d4df8dd7ba66eab83564b22fbda https://www.encodeproject.org/files/ENCFF441MEM/@@download/ENCFF441MEM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DDC bed narrowPeak optimal idr thresholded peaks ENCSR000DUU ChIP-seq CL:0002555 fibroblast of mammary gland primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HPN, ENCFF001HPS 1096364 ENCODE Consortium Analysis Working Group e8eaeec69dc33f8f1e7163092af40675 https://www.encodeproject.org/files/ENCFF002DDC/@@download/ENCFF002DDC.bed.gz hg19 archived low read length, low read depth, inconsistent platforms control insufficient read depth, insufficient read depth ENCFF438XHB bed narrowPeak optimal idr thresholded peaks ENCSR000DUU ChIP-seq CL:0002555 fibroblast of mammary gland primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF090XCI, ENCFF681HOI, ENCFF831MNI 812710 ENCODE Processing Pipeline f427a82e1ac58a95b8ba78e63a5fed5b https://www.encodeproject.org/files/ENCFF438XHB/@@download/ENCFF438XHB.bed.gz hg19 released low read length, low read depth, inconsistent platforms control insufficient read depth, insufficient read depth ENCFF193YAN bed narrowPeak optimal idr thresholded peaks ENCSR784VUY ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens RNF2-human DNA False 2016-12-06 ENCODE 1, 2 ENCFF001TDO, ENCFF121NTB, ENCFF377LKC, ENCFF739OBK 193664 ENCODE Processing Pipeline a67c8791173fbb24fb6a7a9bd69ebf8d https://www.encodeproject.org/files/ENCFF193YAN/@@download/ENCFF193YAN.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, antibody characterized with exemption experiment not submitted to GEO insufficient read depth, poor library complexity, severe bottlenecking missing control alignments ENCFF002CQA bed narrowPeak optimal idr thresholded peaks ENCSR000EAJ ChIP-seq EFO:0002785 GM12891 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-10-29 ENCODE 459231 ENCODE Consortium Analysis Working Group 3e3edcca4591f6adc4da3f652692f702 https://www.encodeproject.org/files/ENCFF002CQA/@@download/ENCFF002CQA.bed.gz hg19 released mixed read lengths biological replicates with identical biosample, missing derived_from insufficient read length ENCFF365JMJ bed narrowPeak optimal idr thresholded peaks ENCSR000EUN ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens ZNF274-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF015DMU, ENCFF374BCB, ENCFF784FBR 26071 ENCODE Processing Pipeline f96107d880775c7908258193d11e8e3e https://www.encodeproject.org/files/ENCFF365JMJ/@@download/ENCFF365JMJ.bed.gz hg19 released low read length, borderline replicate concordance biological replicates with identical biosample extremely low read depth ENCFF002CMZ bed narrowPeak optimal idr thresholded peaks ENCSR000BME ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBTB7A-human DNA see document see document False 2011-07-18 ENCODE 441449 ENCODE Consortium Analysis Working Group f57e8302a733b1d28d1d8fc097de34cd https://www.encodeproject.org/files/ENCFF002CMZ/@@download/ENCFF002CMZ.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from control insufficient read depth ENCFF706ISJ bed narrowPeak optimal idr thresholded peaks ENCSR000BME ChIP-seq EFO:0002067 K562 cell line Homo sapiens ZBTB7A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF101JWH, ENCFF412YTK, ENCFF644MVI 533464 ENCODE Processing Pipeline ee9d4887416c08e558ca9ce0f11d8c69 https://www.encodeproject.org/files/ENCFF706ISJ/@@download/ENCFF706ISJ.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample control insufficient read depth ENCFF002CRM bed narrowPeak optimal idr thresholded peaks ENCSR000EVB ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens ELK4-human DNA see document see document False 2011-10-29 ENCODE 38731 ENCODE Consortium Analysis Working Group 919096356b9185293cad6166f6b760a1 https://www.encodeproject.org/files/ENCFF002CRM/@@download/ENCFF002CRM.bed.gz hg19 released low read length missing derived_from, biological replicates with identical biosample ENCFF450AEF bed narrowPeak optimal idr thresholded peaks ENCSR000BTW ChIP-seq CL:0002319 neural cell in vitro differentiated cells Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF666HPI, ENCFF813QDL, ENCFF936MWV 909701 ENCODE Processing Pipeline fca497b5804264f255cbb22e52ba9c93 https://www.encodeproject.org/files/ENCFF450AEF/@@download/ENCFF450AEF.bed.gz hg19 released biological replicates with identical biosample ENCFF002CWQ bed narrowPeak optimal idr thresholded peaks ENCSR000EWG ChIP-seq EFO:0002067 K562 cell line Homo sapiens GATA2-human DNA see document see document False 2011-10-29 ENCODE 209407 ENCODE Consortium Analysis Working Group 36c61da27aae1632856794e5867b58b3 https://www.encodeproject.org/files/ENCFF002CWQ/@@download/ENCFF002CWQ.bed.gz hg19 archived missing derived_from, biological replicates with identical biosample insufficient read depth, insufficient replicate concordance, insufficient read length ENCFF732HOE bed narrowPeak optimal idr thresholded peaks ENCSR000EWG ChIP-seq EFO:0002067 K562 cell line Homo sapiens GATA2-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF061TTI, ENCFF163ZFQ, ENCFF717ZNF 185950 ENCODE Processing Pipeline 0a5986cb974e654436fe293de05e5274 https://www.encodeproject.org/files/ENCFF732HOE/@@download/ENCFF732HOE.bed.gz hg19 released biological replicates with identical biosample insufficient read depth, insufficient replicate concordance, insufficient read length ENCFF002CST bed narrowPeak optimal idr thresholded peaks ENCSR000ECU ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens MXI1-human DNA see document see document False 2011-10-29 ENCODE 310642 ENCODE Consortium Analysis Working Group 01dcdbaede61ced878ea89eabffe613c https://www.encodeproject.org/files/ENCFF002CST/@@download/ENCFF002CST.bed.gz hg19 released low read length biological replicates with identical biosample, missing derived_from ENCFF002CJD bed narrowPeak optimal idr thresholded peaks ENCSR000BIC ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 442368 ENCODE Consortium Analysis Working Group 9194d81a93b97c5ec0d818439baead9d https://www.encodeproject.org/files/ENCFF002CJD/@@download/ENCFF002CJD.bed.gz hg19 archived low read length, low read depth biological replicates with identical biosample, missing derived_from ENCFF450NDU bed narrowPeak optimal idr thresholded peaks ENCSR000BIC ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF214YQS, ENCFF573RFU, ENCFF718URH 594411 ENCODE Processing Pipeline 90b03cced3ab0a76845d32604a921ccd https://www.encodeproject.org/files/ENCFF450NDU/@@download/ENCFF450NDU.bed.gz hg19 released low read length, low read depth biological replicates with identical biosample ENCFF449NOT bed narrowPeak optimal idr thresholded peaks ENCSR000AUV ChIP-seq CL:0000236 B cell primary cell Homo sapiens CTCF-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF209GQK, ENCFF485ZSI, ENCFF603MIK 887114 ENCODE Processing Pipeline 00020b4b010d07d38f7110db620ee494 https://www.encodeproject.org/files/ENCFF449NOT/@@download/ENCFF449NOT.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing raw data in replicate missing control alignments ENCFF437LHG bed narrowPeak optimal idr thresholded peaks ENCSR000ATN ChIP-seq CL:0001054 CD14-positive monocyte primary cell Homo sapiens CTCF-human DNA see document see document False 2012-08-06 ENCODE 1, 2 ENCFF001TDO, ENCFF097DFJ, ENCFF446PEN, ENCFF920STO 692739 ENCODE Processing Pipeline d352e31174798d828b982e6429bbb48e https://www.encodeproject.org/files/ENCFF437LHG/@@download/ENCFF437LHG.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity insufficient read depth ENCFF002CSP bed narrowPeak optimal idr thresholded peaks ENCSR000EDH ChIP-seq EFO:0002791 HeLa-S3 cell line Homo sapiens JUND-human DNA see document see document False 2011-10-29 ENCODE 750595 ENCODE Consortium Analysis Working Group 8382b1d2abe95d66c1230cf762e7e99e https://www.encodeproject.org/files/ENCFF002CSP/@@download/ENCFF002CSP.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CRP bed narrowPeak optimal idr thresholded peaks ENCSR000EUY ChIP-seq EFO:0001182 HEK293 cell line Homo sapiens TCF7L2-human DNA see document see document False 2011-10-29 ENCODE 227110 ENCODE Consortium Analysis Working Group bb39e8c267d6e62ca145de79bc2057f0 https://www.encodeproject.org/files/ENCFF002CRP/@@download/ENCFF002CRP.bed.gz hg19 released low read length, inconsistent platforms missing derived_from, biological replicates with identical biosample ENCFF002DDF bed narrowPeak optimal idr thresholded peaks ENCSR000DVH ChIP-seq CL:0002518 kidney epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HQY, ENCFF001HRF 826485 ENCODE Consortium Analysis Working Group 239dcdae7b518c7180b066742c0cbc90 https://www.encodeproject.org/files/ENCFF002DDF/@@download/ENCFF002DDF.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth, poor library complexity, severe bottlenecking ENCFF168VBK bed narrowPeak optimal idr thresholded peaks ENCSR000DVH ChIP-seq CL:0002518 kidney epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF444ZJW, ENCFF536XBD, ENCFF583GIR 708472 ENCODE Processing Pipeline d51a91608457f8beecc7c702e4116d49 https://www.encodeproject.org/files/ENCFF168VBK/@@download/ENCFF168VBK.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth, poor library complexity, severe bottlenecking ENCFF002CTT bed narrowPeak optimal idr thresholded peaks ENCSR000EDT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens BHLHE40-human DNA see document see document False 2011-10-29 ENCODE 371442 ENCODE Consortium Analysis Working Group f2dc9c986f80d2c0f13dc34647ca75cf https://www.encodeproject.org/files/ENCFF002CTT/@@download/ENCFF002CTT.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment duplicate lane review, biological replicates with identical biosample, missing derived_from ENCFF108RWG bed narrowPeak optimal idr thresholded peaks ENCSR000EDT ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens BHLHE40-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF242UCP, ENCFF421CEV, ENCFF919QSI 326205 ENCODE Processing Pipeline fc82e797bbc6c57a75a31c87bf1c63dd https://www.encodeproject.org/files/ENCFF108RWG/@@download/ENCFF108RWG.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment duplicate lane review, biological replicates with identical biosample ENCFF583YFS bed narrowPeak optimal idr thresholded peaks ENCSR160ZLP ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens KDM5A-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF422YEP, ENCFF578WGS, ENCFF897HUQ 70823 ENCODE Processing Pipeline ec439f6a6be60227055be00080dcf263 https://www.encodeproject.org/files/ENCFF583YFS/@@download/ENCFF583YFS.bed.gz hg19 released low read length, mild to moderate bottlenecking, inconsistent platforms, mixed read lengths experiment not submitted to GEO ENCFF002CFD bed narrowPeak optimal idr thresholded peaks ENCSR000ANO ChIP-seq CL:0002553 fibroblast of lung primary cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 780549 ENCODE Consortium Analysis Working Group 5fa838083c1a254895f586ec45178b63 https://www.encodeproject.org/files/ENCFF002CFD/@@download/ENCFF002CFD.bed.gz hg19 archived control low read depth, low read length, low read depth, mild to moderate bottlenecking, borderline replicate concordance missing derived_from poor library complexity, severe bottlenecking extremely low read depth, missing control alignments ENCFF734DZF bed narrowPeak optimal idr thresholded peaks ENCSR000ANO ChIP-seq CL:0002553 fibroblast of lung primary cell Homo sapiens CTCF-human DNA see document see document False 2011-02-10 ENCODE 1, 2 ENCFF001TDO, ENCFF005HNY, ENCFF180IOD, ENCFF579SVE 632017 ENCODE Processing Pipeline 19b0f552c264539be3097aab1fcfe955 https://www.encodeproject.org/files/ENCFF734DZF/@@download/ENCFF734DZF.bed.gz hg19 released control low read depth, low read length, low read depth, mild to moderate bottlenecking, borderline replicate concordance poor library complexity, severe bottlenecking extremely low read depth, missing control alignments ENCFF002DDQ bed narrowPeak optimal idr thresholded peaks ENCSR000DXI ChIP-seq CL:0002328 bronchial epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001HWO, ENCFF001HWP 837045 ENCODE Consortium Analysis Working Group b5b6873cc98fdcb33c369f06cb4ce76b https://www.encodeproject.org/files/ENCFF002DDQ/@@download/ENCFF002DDQ.bed.gz hg19 archived control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth, severe bottlenecking extremely low read depth ENCFF401ONY bed narrowPeak optimal idr thresholded peaks ENCSR000DXI ChIP-seq CL:0002328 bronchial epithelial cell primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF116ONS, ENCFF453SOO, ENCFF821CAK 707859 ENCODE Processing Pipeline bd9ebf6bcf664839e8f8464a465ebea0 https://www.encodeproject.org/files/ENCFF401ONY/@@download/ENCFF401ONY.bed.gz hg19 released control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity insufficient read depth, severe bottlenecking extremely low read depth ENCFF002CES bed narrowPeak optimal idr thresholded peaks ENCSR000AQA ChIP-seq EFO:0002067 K562 cell line Homo sapiens KDM5B-human DNA see document see document False 2012-03-06 ENCODE 369147 ENCODE Consortium Analysis Working Group 86b81d77fa5dc25665ce55080ea5a16e https://www.encodeproject.org/files/ENCFF002CES/@@download/ENCFF002CES.bed.gz hg19 archived moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing derived_from, missing raw data in replicate insufficient replicate concordance ENCFF368TYM bed narrowPeak optimal idr thresholded peaks ENCSR000AQA ChIP-seq EFO:0002067 K562 cell line Homo sapiens KDM5B-human DNA see document see document False 2012-03-06 ENCODE 1, 2 ENCFF001TDO, ENCFF106WXI, ENCFF629JIS, ENCFF758VGA 411041 ENCODE Processing Pipeline 345d4603d143c43d2fd3a5937287c1f4 https://www.encodeproject.org/files/ENCFF368TYM/@@download/ENCFF368TYM.bed.gz hg19 released moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth missing raw data in replicate insufficient replicate concordance ENCFF002CFR bed narrowPeak optimal idr thresholded peaks ENCSR000BHF ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 50 nM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 569705 ENCODE Consortium Analysis Working Group 3c217e8778ef5e9e7a24ade03de7f67f https://www.encodeproject.org/files/ENCFF002CFR/@@download/ENCFF002CFR.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from ENCFF648ZNE bed narrowPeak optimal idr thresholded peaks ENCSR000BHF ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 50 nM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF185AVK, ENCFF424TUG, ENCFF680RJL 458466 ENCODE Processing Pipeline 3e28d89d949807a1ffc27397ebde933f https://www.encodeproject.org/files/ENCFF648ZNE/@@download/ENCFF648ZNE.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample ENCFF002DBW bed narrowPeak optimal idr thresholded peaks ENCSR000DPM ChIP-seq EFO:0006270 AG04450 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 964836 ENCODE Consortium Analysis Working Group fe0348a4dfcb5662bba851d5850e871a https://www.encodeproject.org/files/ENCFF002DBW/@@download/ENCFF002DBW.bed.gz hg19 archived control low read depth, low read length, low read depth, inconsistent platforms missing derived_from ENCFF681OWQ bed narrowPeak optimal idr thresholded peaks ENCSR000DPM ChIP-seq EFO:0006270 AG04450 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 1, 2 ENCFF001TDO, ENCFF121QUN, ENCFF709XOM, ENCFF940KDS 780687 ENCODE Processing Pipeline 9785a54dd69bb39cb46f95c625e0c1fb https://www.encodeproject.org/files/ENCFF681OWQ/@@download/ENCFF681OWQ.bed.gz hg19 released control low read depth, low read length, low read depth, inconsistent platforms ENCFF002CQZ bed narrowPeak optimal idr thresholded peaks ENCSR000EBS ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens MAFK-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF000WTL, ENCFF000WTO 289621 ENCODE Consortium Analysis Working Group 9188dfc8c8f29afab3845d1a3f90b18c https://www.encodeproject.org/files/ENCFF002CQZ/@@download/ENCFF002CQZ.bed.gz hg19 archived file validation error, low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample, mismatched file status ENCFF646GCM bed narrowPeak optimal idr thresholded peaks ENCSR000EBS ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens MAFK-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF039SJR, ENCFF671DTY, ENCFF977JIT 237494 ENCODE Processing Pipeline 108afcdf21f46b3d015de451be0f4d11 https://www.encodeproject.org/files/ENCFF646GCM/@@download/ENCFF646GCM.bed.gz hg19 released file validation error, low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment biological replicates with identical biosample, mismatched file status ENCFF002DAJ bed narrowPeak optimal idr thresholded peaks ENCSR000DKV ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 943769 ENCODE Consortium Analysis Working Group f05d542a177ee7a769c68a1f4e553b67 https://www.encodeproject.org/files/ENCFF002DAJ/@@download/ENCFF002DAJ.bed.gz hg19 released inconsistent platforms missing derived_from, biological replicates with identical biosample insufficient read length ENCFF002CML bed narrowPeak optimal idr thresholded peaks ENCSR000BLR ChIP-seq EFO:0002067 K562 cell line Homo sapiens SIN3A-human DNA see document see document False 2011-07-18 ENCODE 289014 ENCODE Consortium Analysis Working Group bda8755d57b4e4a73c98bd34c38c2fe1 https://www.encodeproject.org/files/ENCFF002CML/@@download/ENCFF002CML.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity missing derived_from, biological replicates with identical biosample control insufficient read depth, insufficient replicate concordance ENCFF803COK bed narrowPeak optimal idr thresholded peaks ENCSR000BLR ChIP-seq EFO:0002067 K562 cell line Homo sapiens SIN3A-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF453GLP, ENCFF638TWN, ENCFF701TJB 33975 ENCODE Processing Pipeline e601678321e35fd0a4da40e7902d95c4 https://www.encodeproject.org/files/ENCFF803COK/@@download/ENCFF803COK.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample control insufficient read depth, insufficient replicate concordance ENCFF002DAK bed narrowPeak optimal idr thresholded peaks ENCSR000DKT ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens POLR2A-human DNA see document see document False 2011-03-17 ENCODE 330987 ENCODE Consortium Analysis Working Group 92626e5c67bb02c63d3fa5cdfdfe2715 https://www.encodeproject.org/files/ENCFF002DAK/@@download/ENCFF002DAK.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, mixed read lengths biological replicates with identical biosample, missing derived_from insufficient read depth, poor library complexity, severe bottlenecking, insufficient read length ENCFF002DAA bed narrowPeak optimal idr thresholded peaks ENCSR000EXZ ChIP-seq EFO:0002717 SH-SY5Y cell line Homo sapiens GATA3-human DNA see document see document False 2011-10-29 ENCODE 377422 ENCODE Consortium Analysis Working Group cf3f4c61f56f1eb7476f8b52534291a5 https://www.encodeproject.org/files/ENCFF002DAA/@@download/ENCFF002DAA.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample, missing derived_from ENCFF269JRM bed narrowPeak optimal idr thresholded peaks ENCSR000EXZ ChIP-seq EFO:0002717 SH-SY5Y cell line Homo sapiens GATA3-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF272ARC, ENCFF601TVP, ENCFF646DRT 345418 ENCODE Processing Pipeline 3ab06a65b20e88ae95e4e386e2a9a886 https://www.encodeproject.org/files/ENCFF269JRM/@@download/ENCFF269JRM.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, moderate library complexity biological replicates with identical biosample ENCFF002CIN bed narrowPeak optimal idr thresholded peaks ENCSR000BIA ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 364520 ENCODE Consortium Analysis Working Group a23515b20a50e28b6eea4bb5a2cd1168 https://www.encodeproject.org/files/ENCFF002CIN/@@download/ENCFF002CIN.bed.gz hg19 archived control low read depth, low read length, low read depth missing derived_from, biological replicates with identical biosample ENCFF271KDK bed narrowPeak optimal idr thresholded peaks ENCSR000BIA ChIP-seq EFO:0002786 GM12892 cell line Homo sapiens POLR2AphosphoS5-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF400PXF, ENCFF430MIT, ENCFF543QDS 477817 ENCODE Processing Pipeline f08e699a0cdd86fc32a5ced82408f769 https://www.encodeproject.org/files/ENCFF271KDK/@@download/ENCFF271KDK.bed.gz hg19 released control low read depth, low read length, low read depth biological replicates with identical biosample ENCFF002CVT bed narrowPeak optimal idr thresholded peaks ENCSR000EHO ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMARCA4-human DNA see document see document False 2011-10-29 ENCODE 62006 ENCODE Consortium Analysis Working Group f0053fecf831b5f3782432eb66f512e0 https://www.encodeproject.org/files/ENCFF002CVT/@@download/ENCFF002CVT.bed.gz hg19 archived borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample, missing derived_from insufficient read depth, insufficient read length ENCFF710LRU bed narrowPeak optimal idr thresholded peaks ENCSR000EHO ChIP-seq EFO:0002067 K562 cell line Homo sapiens SMARCA4-human DNA see document see document False 2011-10-29 ENCODE 1, 2 ENCFF001TDO, ENCFF155OWJ, ENCFF327OZA, ENCFF577SXY 75396 ENCODE Processing Pipeline 3d8c82d5a90365fb3f865c67613b24ec https://www.encodeproject.org/files/ENCFF710LRU/@@download/ENCFF710LRU.bed.gz hg19 released borderline replicate concordance, low read depth, inconsistent target of control experiment biological replicates with identical biosample insufficient read depth, insufficient read length ENCFF002CNX bed narrowPeak optimal idr thresholded peaks ENCSR000BKY ChIP-seq EFO:0001247 T47D cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour FOXA1-human DNA see document see document False 2011-07-18 ENCODE 790455 ENCODE Consortium Analysis Working Group 354cc51173bb51f774fddb577c87c857 https://www.encodeproject.org/files/ENCFF002CNX/@@download/ENCFF002CNX.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample, missing derived_from ENCFF132WOI bed narrowPeak optimal idr thresholded peaks ENCSR000BKY ChIP-seq EFO:0001247 T47D cell line Homo sapiens dimethyl sulfoxide 0.02 percent 1 hour FOXA1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF038SPJ, ENCFF526YXC, ENCFF544QLN 811564 ENCODE Processing Pipeline ba6fe4d9eb5bab786a9c237bd412de9f https://www.encodeproject.org/files/ENCFF132WOI/@@download/ENCFF132WOI.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF002DBA bed narrowPeak optimal idr thresholded peaks ENCSR000DLW ChIP-seq CL:0002618 endothelial cell of umbilical vein primary cell Homo sapiens CTCF-human DNA see document see document False 2011-03-17 ENCODE 891419 ENCODE Consortium Analysis Working Group d488647dab782e3362984b6656a72d0b https://www.encodeproject.org/files/ENCFF002DBA/@@download/ENCFF002DBA.bed.gz hg19 released biological replicates with identical biosample, missing derived_from insufficient read length ENCFF002CUK bed narrowPeak optimal idr thresholded peaks ENCSR000EDN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAZ-human DNA see document see document False 2012-05-14 ENCODE 312639 ENCODE Consortium Analysis Working Group 439832b6bb55ca22b47907260f823928 https://www.encodeproject.org/files/ENCFF002CUK/@@download/ENCFF002CUK.bed.gz hg19 archived borderline replicate concordance, moderate library complexity, inconsistent target of control experiment, low read length, mild to moderate bottlenecking, low read depth missing derived_from, biological replicates with identical biosample ENCFF421SEJ bed narrowPeak optimal idr thresholded peaks ENCSR000EDN ChIP-seq EFO:0001187 HepG2 cell line Homo sapiens MAZ-human DNA see document see document False 2012-05-14 ENCODE 1, 2 ENCFF001TDO, ENCFF479LKN, ENCFF668ITU, ENCFF969CUT 285287 ENCODE Processing Pipeline 5b4317e08a15d3d41a087c68fcdcf641 https://www.encodeproject.org/files/ENCFF421SEJ/@@download/ENCFF421SEJ.bed.gz hg19 released borderline replicate concordance, moderate library complexity, inconsistent target of control experiment, low read length, mild to moderate bottlenecking, low read depth biological replicates with identical biosample ENCFF721SDD bed narrowPeak optimal idr thresholded peaks ENCSR000DYR ChIP-seq EFO:0002784 GM12878 cell line Homo sapiens CUX1-human DNA see document see document False 2012-08-20 ENCODE 1, 2 ENCFF001TDO, ENCFF253OOR, ENCFF452BDW, ENCFF881ZSX 144927 ENCODE Processing Pipeline 2baa963f5a20127cf4c51d1458e74e6f https://www.encodeproject.org/files/ENCFF721SDD/@@download/ENCFF721SDD.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample insufficient replicate concordance ENCFF917ZPO bed narrowPeak optimal idr thresholded peaks ENCSR000BSE ChIP-seq EFO:0002824 HCT116 cell line Homo sapiens CTCF-human DNA see document see document False 2012-09-10 ENCODE 1, 2 ENCFF001TDO, ENCFF021NMZ, ENCFF214AAT, ENCFF971PWB 602672 ENCODE Processing Pipeline eb204541dbdac5aa54d530917f198a18 https://www.encodeproject.org/files/ENCFF917ZPO/@@download/ENCFF917ZPO.bed.gz hg19 released mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity biological replicates with identical biosample insufficient read depth missing control alignments ENCFF002CFT bed narrowPeak optimal idr thresholded peaks ENCSR000BJR ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 100 nM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 383261 ENCODE Consortium Analysis Working Group ed04dad9591a53ab86cf4c71d4b97597 https://www.encodeproject.org/files/ENCFF002CFT/@@download/ENCFF002CFT.bed.gz hg19 archived low read length, low read depth, inconsistent target of control experiment missing derived_from, biological replicates with identical biosample insufficient read depth ENCFF080RMP bed narrowPeak optimal idr thresholded peaks ENCSR000BJR ChIP-seq EFO:0001086 A549 cell line Homo sapiens dexamethasone 100 nM 1 hour NR3C1-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF033RSK, ENCFF631NXF, ENCFF664XHQ 222072 ENCODE Processing Pipeline cf7d2954902a39818ff7b875dc307a9e https://www.encodeproject.org/files/ENCFF080RMP/@@download/ENCFF080RMP.bed.gz hg19 released low read length, low read depth, inconsistent target of control experiment biological replicates with identical biosample insufficient read depth ENCFF936JMD bed narrowPeak optimal idr thresholded peaks ENCSR814KIO ChIP-seq EFO:0003042 H1-hESC stem cell Homo sapiens CBX5-human DNA False 2016-12-06 ENCODE 1, 2 ENCFF001TDO, ENCFF110RXK, ENCFF299IER, ENCFF535NEK 6175 ENCODE Processing Pipeline 61b1575a3c471b239c764df28bd2e3d1 https://www.encodeproject.org/files/ENCFF936JMD/@@download/ENCFF936JMD.bed.gz hg19 released low read length, low read depth, antibody characterized with exemption experiment not submitted to GEO ENCFF002CLN bed narrowPeak optimal idr thresholded peaks ENCSR000BNU ChIP-seq EFO:0002067 K562 cell line Homo sapiens ATF3-human DNA see document see document False 2011-07-18 ENCODE 312249 ENCODE Consortium Analysis Working Group d1af167591078c356c4ff1f625297619 https://www.encodeproject.org/files/ENCFF002CLN/@@download/ENCFF002CLN.bed.gz hg19 archived low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample, missing derived_from control insufficient read depth ENCFF475TQE bed narrowPeak optimal idr thresholded peaks ENCSR000BNU ChIP-seq EFO:0002067 K562 cell line Homo sapiens ATF3-human DNA see document see document False 2011-07-18 ENCODE 1, 2 ENCFF001TDO, ENCFF015HEH, ENCFF146YXX, ENCFF251XOI 128953 ENCODE Processing Pipeline 146c148cf8221517c340d416403eefc1 https://www.encodeproject.org/files/ENCFF475TQE/@@download/ENCFF475TQE.bed.gz hg19 released low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity biological replicates with identical biosample control insufficient read depth