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, low read depth, borderline replicate concordance biological replicates with identical biosample 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 moderate library complexity, mild to moderate bottlenecking, inconsistent platforms 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 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 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 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample insufficient read depth 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 moderate library complexity, low read length, borderline replicate concordance, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample poor library complexity, severe bottlenecking, insufficient read depth 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 moderate library complexity, low read length, borderline replicate concordance, low read depth, mild to moderate bottlenecking biological replicates with identical biosample poor library complexity, severe bottlenecking, insufficient read depth 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 missing derived_from, biological replicates with identical biosample 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 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 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 moderate library complexity, mild to moderate bottlenecking, inconsistent platforms experiment not submitted to GEO poor library complexity, partially characterized antibody, severe bottlenecking 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 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 antibody characterized with exemption, low read depth 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 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 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 missing derived_from, biological replicates with identical biosample 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 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 missing derived_from, biological replicates with identical biosample 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 biological replicates with identical biosample 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 moderate library complexity, mild to moderate bottlenecking, borderline replicate concordance 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 borderline replicate concordance, low read length, low read depth, mild to moderate bottlenecking 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 borderline replicate concordance, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 missing derived_from, biological replicates with identical biosample 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 biological replicates with identical biosample 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 moderate library complexity, low read depth, mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody 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 moderate library complexity, mild to moderate bottlenecking 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 moderate library complexity, low read length, borderline replicate concordance, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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 moderate library complexity, low read length, borderline replicate concordance, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 borderline replicate concordance, low read length, low read depth, mild to moderate bottlenecking 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 borderline replicate concordance, low read length, low read depth, mild to moderate bottlenecking 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, low read depth, borderline replicate concordance missing derived_from, biological replicates with identical biosample 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, low read depth, borderline replicate concordance biological replicates with identical biosample insufficient replicate concordance 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 antibody characterized with exemption 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 moderate library complexity, mild to moderate bottlenecking experiment not submitted to GEO poor library complexity, partially characterized antibody, severe bottlenecking 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 moderate library complexity, low read depth, mild to moderate bottlenecking 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 depth, low read length, mild to moderate bottlenecking, inconsistent platforms 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 depth, low read length, mild to moderate bottlenecking, inconsistent platforms 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking, mixed read lengths, borderline replicate concordance 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking, mixed read lengths, borderline replicate concordance biological replicates with identical biosample insufficient read depth extremely low read length 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 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, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 moderate library complexity, low read depth, mild to moderate bottlenecking experiment not submitted to GEO 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, low read depth, borderline replicate concordance 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, low read depth, borderline replicate concordance duplicate lane review, biological replicates with identical biosample 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 borderline replicate concordance, low read depth, mild to moderate bottlenecking 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 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 missing derived_from, biological replicates with identical biosample 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 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 missing raw data in replicate, missing derived_from, biological replicates with identical biosample 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 moderate library complexity, mild to moderate bottlenecking experiment not submitted to GEO 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, low read depth, borderline replicate concordance 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, low read depth, borderline replicate concordance biological replicates with identical biosample 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 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 raw data in replicate, missing derived_from 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 missing derived_from, biological replicates with identical biosample 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 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, low read depth, borderline replicate concordance 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, low read depth, borderline replicate concordance biological replicates with identical biosample insufficient read depth 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 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 biological replicates with identical biosample 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 borderline replicate concordance, low read length, 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 borderline replicate concordance, low read length, inconsistent platforms biological replicates with identical biosample 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 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 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample insufficient read depth 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 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 borderline replicate concordance, mild to moderate bottlenecking, inconsistent platforms experiment not submitted to GEO 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 missing derived_from, biological replicates with identical biosample insufficient read length 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 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 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 antibody characterized with exemption, borderline replicate concordance 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 moderate library complexity, mild to moderate bottlenecking 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 moderate library complexity, mild to moderate bottlenecking 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 missing derived_from, biological replicates with identical biosample 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 insufficient replicate concordance 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 missing derived_from, biological replicates with identical biosample 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 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 moderate library complexity, low read depth, mild to moderate bottlenecking 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, low read depth, mild to moderate bottlenecking 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, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 missing derived_from, biological replicates with identical biosample insufficient replicate concordance, insufficient read depth 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 replicate concordance, insufficient read depth 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 moderate library complexity, mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody 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 moderate library complexity, mild to moderate bottlenecking 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 missing derived_from, biological replicates with identical biosample 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 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 moderate library complexity, mild to moderate bottlenecking 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 borderline replicate concordance, low read length, low read depth, inconsistent platforms 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 borderline replicate concordance, low read length, low read depth, inconsistent platforms 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 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 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 moderate library complexity, mild to moderate bottlenecking 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, low read depth, borderline replicate concordance 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, low read depth, borderline replicate concordance biological replicates with identical biosample 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 missing derived_from, biological replicates with identical biosample 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 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 missing derived_from, biological replicates with identical biosample 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 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 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 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 mixed read lengths, low read length, low read depth biological replicates with identical biosample insufficient read length, insufficient read depth 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 biological replicates with identical biosample insufficient replicate concordance 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample insufficient read depth 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, low read depth, mild to moderate bottlenecking 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, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 borderline replicate concordance, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 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 biological replicates with identical biosample 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 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 low read depth, borderline replicate concordance missing derived_from 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 low read depth, borderline replicate concordance insufficient read length 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 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 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 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 mild to moderate bottlenecking, low read length, moderate library complexity, low read depth, inconsistent platforms missing derived_from, biological replicates with identical biosample 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 mild to moderate bottlenecking, low read length, moderate library complexity, low read depth, inconsistent platforms biological replicates with identical biosample 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 moderate library complexity, borderline replicate concordance, low read depth, mild to moderate bottlenecking 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 moderate library complexity, borderline replicate concordance, low read depth, mild to moderate bottlenecking 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 moderate library complexity, low read length, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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 moderate library complexity, low read length, mild to moderate bottlenecking biological replicates with identical biosample insufficient read depth 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 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 missing derived_from, biological replicates with identical biosample insufficient read length 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 moderate library complexity, low read depth, mild to moderate bottlenecking 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 low read depth, mild to moderate bottlenecking 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 borderline replicate concordance, low read length, low read depth, mild to moderate bottlenecking 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 borderline replicate concordance, low read length, low read depth, mild to moderate bottlenecking 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 low read depth, borderline replicate concordance 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, low read depth, borderline replicate concordance 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, low read depth, borderline replicate concordance duplicate lane review, biological replicates with identical biosample 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 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 antibody characterized with exemption, low read depth, borderline replicate concordance 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample insufficient replicate concordance, insufficient read depth 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample insufficient replicate concordance, insufficient read depth 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 antibody characterized with exemption, borderline replicate concordance 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 antibody characterized with exemption, borderline replicate concordance mismatched file status 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, low read depth, borderline replicate concordance missing derived_from, biological replicates with identical biosample 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, low read depth, borderline replicate concordance biological replicates with identical biosample 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 antibody characterized with exemption, low read depth 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 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 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 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 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 antibody characterized with exemption, mild to moderate bottlenecking, borderline replicate concordance 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 antibody characterized with exemption, mild to moderate bottlenecking, borderline replicate concordance 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 moderate library complexity, mild to moderate bottlenecking, low read depth, inconsistent platforms 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, low read depth, borderline replicate concordance missing derived_from, biological replicates with identical biosample 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, low read depth, borderline replicate concordance biological replicates with identical biosample 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 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, low read depth, borderline replicate concordance 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, low read depth, borderline replicate concordance biological replicates with identical biosample 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample severe bottlenecking 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 mixed read lengths, low read length, mild to moderate bottlenecking, low read depth missing derived_from 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 mixed read lengths, low read length, mild to moderate bottlenecking, low read depth insufficient read depth 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 moderate library complexity, mild to moderate bottlenecking, low read depth experiment not submitted to GEO poor library complexity, severe bottlenecking 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 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 biological replicates with identical biosample 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 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 low read depth, mild to moderate bottlenecking experiment not submitted to GEO partially characterized antibody 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 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 biological replicates with identical biosample 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 antibody characterized with exemption, low read depth 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, low read depth, inconsistent platforms 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, low read depth, inconsistent platforms extremely low read depth 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 borderline replicate concordance, low read length, mild to moderate bottlenecking, inconsistent platforms missing derived_from 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 borderline replicate concordance, low read length, mild to moderate bottlenecking, inconsistent platforms 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, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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, low read depth, mild to moderate bottlenecking biological replicates with identical biosample insufficient 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 missing derived_from, biological replicates with identical biosample insufficient read length 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 antibody characterized with exemption, mild to moderate bottlenecking 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 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 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 antibody characterized with exemption, mild to moderate bottlenecking 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 missing derived_from, biological replicates with identical biosample 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 biological replicates with identical biosample 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 insufficient read length, insufficient read depth 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 missing derived_from, biological replicates with identical biosample 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 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 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 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 antibody characterized with exemption, mild to moderate bottlenecking 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 moderate library complexity, low read length, mild to moderate bottlenecking, borderline replicate concordance NTR biosample, missing derived_from, biological replicates with identical biosample poor library complexity, severe bottlenecking, insufficient read depth 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 moderate library complexity, low read length, mild to moderate bottlenecking, borderline replicate concordance NTR biosample, biological replicates with identical biosample poor library complexity, severe bottlenecking, insufficient read depth extremely low read depth 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 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 missing derived_from, biological replicates with identical biosample 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 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 poor library complexity, severe bottlenecking, insufficient read depth 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 poor library complexity, severe bottlenecking, insufficient read depth 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 borderline replicate concordance, low read depth, mild to moderate bottlenecking duplicate lane review 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, low read depth, borderline replicate concordance 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, low read depth, borderline replicate concordance biological replicates with identical biosample insufficient replicate concordance 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 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, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 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 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 biological replicates with identical biosample insufficient replicate concordance 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample insufficient read depth 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 antibody characterized with exemption, mild to moderate bottlenecking, borderline replicate concordance 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, low read depth, borderline replicate concordance 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, low read depth, borderline replicate concordance biological replicates with identical biosample 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, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 missing derived_from, biological replicates with identical biosample 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 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking missing derived_from, biological replicates with identical biosample 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample insufficient replicate concordance 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, missing derived_from, biological replicates with identical biosample insufficient read length 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 moderate library complexity, antibody characterized with exemption, mild to moderate bottlenecking, borderline replicate concordance 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 moderate library complexity, mild to moderate bottlenecking 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 antibody characterized with exemption, mild to moderate bottlenecking 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 antibody characterized with exemption, mild to moderate bottlenecking 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 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 moderate library complexity, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 moderate library complexity, antibody characterized with exemption, mild to moderate bottlenecking 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 antibody characterized with exemption, mild to moderate bottlenecking 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 moderate library complexity, low read depth, mild to moderate bottlenecking 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 moderate library complexity, mild to moderate bottlenecking 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 moderate library complexity, mild to moderate bottlenecking 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 mild to moderate bottlenecking, low read length, mixed read lengths, low read depth, inconsistent platforms missing derived_from, biological replicates with identical biosample poor library complexity, severe bottlenecking, insufficient read length, insufficient read depth 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, antibody characterized with exemption, low read depth, inconsistent platforms biological replicates with identical biosample 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 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 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 antibody characterized with exemption, low read depth 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 antibody characterized with exemption, low read depth 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 moderate library complexity, low read depth, mild to moderate bottlenecking 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 borderline replicate concordance, low read length, low read depth, mild to moderate bottlenecking biological replicates with identical biosample 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 moderate library complexity, antibody characterized with exemption, mild to moderate bottlenecking