ENCFF992QZV	bed narrowPeak	optimal idr thresholded peaks	ENCSR494TDU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NRF1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF312EZM, ENCFF477OCU, ENCFF940NRT	622007	ENCODE Processing Pipeline	abd4e1b435d690187f35c0bf71fe5cdb		https://www.encodeproject.org/files/ENCFF992QZV/@@download/ENCFF992QZV.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF638YFC	bed narrowPeak	optimal idr thresholded peaks	ENCSR494TDU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NRF1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF116JUN, ENCFF731JDO, ENCFF794VUJ	549409	ENCODE Processing Pipeline	251eed7221822cb7a11fd6e446f1ffc8		https://www.encodeproject.org/files/ENCFF638YFC/@@download/ENCFF638YFC.bed.gz	hg19			archived	mild to moderate bottlenecking			
ENCFF494ZUY	bed narrowPeak	optimal idr thresholded peaks	ENCSR654CQU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SNIP1-human	DNA					False	2017-06-23	ENCODE				1, 2							ENCFF001TDO, ENCFF039BZL, ENCFF363FXM, ENCFF842STK	52646	ENCODE Processing Pipeline	d84d3f827e6208c9292af63c7bd62158		https://www.encodeproject.org/files/ENCFF494ZUY/@@download/ENCFF494ZUY.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF965ZRH	bed narrowPeak	optimal idr thresholded peaks	ENCSR348JOJ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MTA1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF007YBE, ENCFF078PIE, ENCFF232YBQ	230360	ENCODE Processing Pipeline	034fb3e1a66d522847d0967705c3236c		https://www.encodeproject.org/files/ENCFF965ZRH/@@download/ENCFF965ZRH.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF712UDN	bed narrowPeak	optimal idr thresholded peaks	ENCSR348JOJ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MTA1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF358UBC, ENCFF730HVB, ENCFF774YZA	185909	ENCODE Processing Pipeline	e5f656c30eb3a3926efc3d5a30075e57		https://www.encodeproject.org/files/ENCFF712UDN/@@download/ENCFF712UDN.bed.gz	hg19			archived	antibody characterized with exemption			
ENCFF545DAF	bed narrowPeak	optimal idr thresholded peaks	ENCSR117WTM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-ZNF24-human	DNA					False	2016-03-02	ENCODE				1, 2							ENCFF001TDO, ENCFF670KBE, ENCFF694BDZ, ENCFF710KBI	243151	ENCODE Processing Pipeline	2d74e845180c2708a1b8a2f4ba901591		https://www.encodeproject.org/files/ENCFF545DAF/@@download/ENCFF545DAF.bed.gz	hg19			released	low read depth, missing genetic modification characterization			
ENCFF493TZM	bed narrowPeak	optimal idr thresholded peaks	ENCSR744WOO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TCF12-human	DNA					False	2016-10-24	ENCODE				1, 2							ENCFF001TDO, ENCFF334SEU, ENCFF337ISL, ENCFF870JMX	509065	ENCODE Processing Pipeline	3683eb367b6ea3aaab2799d3a4abd218		https://www.encodeproject.org/files/ENCFF493TZM/@@download/ENCFF493TZM.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF717TWA	bed narrowPeak	optimal idr thresholded peaks	ENCSR550HCT	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-KLF1-human	DNA					False	2016-01-14	ENCODE				1, 2							ENCFF001TDO, ENCFF255LGM, ENCFF830SMA, ENCFF842XXA	221756	ENCODE Processing Pipeline	d6e556ebcba694582483815e5740993f		https://www.encodeproject.org/files/ENCFF717TWA/@@download/ENCFF717TWA.bed.gz	hg19			released	missing genetic modification characterization	missing mapped reads lengths		
ENCFF157UUF	bed narrowPeak	optimal idr thresholded peaks	ENCSR657EOF	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFRKB-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF235FNK, ENCFF338NAH, ENCFF674FOQ	360420	ENCODE Processing Pipeline	f149fb690dd6079819477e00024ce227		https://www.encodeproject.org/files/ENCFF157UUF/@@download/ENCFF157UUF.bed.gz	hg19			released	low read depth			
ENCFF273BVT	bed narrowPeak	optimal idr thresholded peaks	ENCSR117KWH	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZNF207-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF432JWQ, ENCFF744DJH, ENCFF790EAG	253776	ENCODE Processing Pipeline	723ae98f692a0545c08fab0660c49ebe		https://www.encodeproject.org/files/ENCFF273BVT/@@download/ENCFF273BVT.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF352HGW	bed narrowPeak	optimal idr thresholded peaks	ENCSR720HUL	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				E2F1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF252JHJ, ENCFF358UWQ, ENCFF401MRM	359284	ENCODE Processing Pipeline	e24abce2eb93185b8fab54ab59d5f784		https://www.encodeproject.org/files/ENCFF352HGW/@@download/ENCFF352HGW.bed.gz	hg19			archived	mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	experiment not submitted to GEO	poor library complexity, severe bottlenecking, partially characterized antibody	
ENCFF106DAY	bed narrowPeak	optimal idr thresholded peaks	ENCSR720HUL	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				E2F1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF199PBO, ENCFF260KBY, ENCFF721GUV	431592	ENCODE Processing Pipeline	eebcfeb474d20d087492413655d9c57c		https://www.encodeproject.org/files/ENCFF106DAY/@@download/ENCFF106DAY.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	experiment not submitted to GEO	poor library complexity, severe bottlenecking, partially characterized antibody	
ENCFF455YHJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR192AFN	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				PAX8-human	DNA					False	2017-11-30	ENCODE				1, 2							ENCFF001TDO, ENCFF268ECX, ENCFF350LWS, ENCFF769CZK	73718	ENCODE Processing Pipeline	2598e2b4d1582b2d4fd97e93d48f9d08		https://www.encodeproject.org/files/ENCFF455YHJ/@@download/ENCFF455YHJ.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity	experiment not submitted to GEO		
ENCFF282SXB	bed narrowPeak	optimal idr thresholded peaks	ENCSR949IWY	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				PAX8-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF014SMM, ENCFF291LKR, ENCFF371FPA	52089	ENCODE Processing Pipeline	35d8b5977ee67e6d987d5b8a11f091b9		https://www.encodeproject.org/files/ENCFF282SXB/@@download/ENCFF282SXB.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF410EDG	bed narrowPeak	optimal idr thresholded peaks	ENCSR113LAS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MTA2-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF094YIY, ENCFF186VAU, ENCFF501DZY	259215	ENCODE Processing Pipeline	dcb6e6f91e09c643f12408b087773474		https://www.encodeproject.org/files/ENCFF410EDG/@@download/ENCFF410EDG.bed.gz	hg19			released	low read depth			
ENCFF408FQC	bed narrowPeak	optimal idr thresholded peaks	ENCSR876GXA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZBTB33-human	DNA					False	2016-06-23	ENCODE				3, 4							ENCFF001TDO, ENCFF108BVL, ENCFF388RWJ, ENCFF778NFD	974557	ENCODE Processing Pipeline	a9f515a615c9736874c5b02b3ef2f106		https://www.encodeproject.org/files/ENCFF408FQC/@@download/ENCFF408FQC.bed.gz	hg19			released	low read depth			
ENCFF958KNK	bed narrowPeak	optimal idr thresholded peaks	ENCSR028UIU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ATF3-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF034DTN, ENCFF164BVB, ENCFF263MQY	1074003	ENCODE Processing Pipeline	9766f5508a9d7c4285265a20084a2850		https://www.encodeproject.org/files/ENCFF958KNK/@@download/ENCFF958KNK.bed.gz	hg19			released	mild to moderate bottlenecking, inconsistent platforms, moderate library complexity	experiment not submitted to GEO		
ENCFF249EZR	bed narrowPeak	optimal idr thresholded peaks	ENCSR863KUB	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TCF7-human	DNA					False	2016-01-14	ENCODE				1, 2							ENCFF001TDO, ENCFF086FEW, ENCFF127VYL, ENCFF588ZYR	107201	ENCODE Processing Pipeline	e6d734cd2dddbdb65175f4aac5d619c6		https://www.encodeproject.org/files/ENCFF249EZR/@@download/ENCFF249EZR.bed.gz	hg19			released	borderline replicate concordance, low read depth, antibody characterized with exemption			missing control alignments
ENCFF909FRA	bed narrowPeak	optimal idr thresholded peaks	ENCSR041XML	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SRF-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF172UOB, ENCFF467WTS, ENCFF500GHH	355186	ENCODE Processing Pipeline	61fffb75b6f30e6189a0319942b70dab		https://www.encodeproject.org/files/ENCFF909FRA/@@download/ENCFF909FRA.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity	experiment not submitted to GEO	partially characterized antibody	
ENCFF370ENX	bed narrowPeak	optimal idr thresholded peaks	ENCSR796ITY	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFIC-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF292SNP, ENCFF351DKB, ENCFF754CMK	878417	ENCODE Processing Pipeline	c5c8948cb0e3434da4fa620f09ef9812		https://www.encodeproject.org/files/ENCFF370ENX/@@download/ENCFF370ENX.bed.gz	hg19			released	mild to moderate bottlenecking, inconsistent platforms			
ENCFF925DJG	bed narrowPeak	optimal idr thresholded peaks	ENCSR953DVM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				E2F8-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF133EYO, ENCFF696BJA, ENCFF904YUH	199330	ENCODE Processing Pipeline	a54bfc70ca37fae47890b441013320dd		https://www.encodeproject.org/files/ENCFF925DJG/@@download/ENCFF925DJG.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF526EEI	bed narrowPeak	optimal idr thresholded peaks	ENCSR975SSR	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-ELF1-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF074NKQ, ENCFF241QBV, ENCFF769RKU	313782	ENCODE Processing Pipeline	1f4cf632566898df354da40c0e111751		https://www.encodeproject.org/files/ENCFF526EEI/@@download/ENCFF526EEI.bed.gz	hg19			released	missing genetic modification characterization			
ENCFF886VSU	bed narrowPeak	optimal idr thresholded peaks	ENCSR948VFL	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				IKZF1-human	DNA					False	2016-10-11	ENCODE				1, 2							ENCFF001TDO, ENCFF165OLG, ENCFF320JKZ, ENCFF519QZC	870116	ENCODE Processing Pipeline	75a920f51d6077f2f65ffc7fadadfe2e		https://www.encodeproject.org/files/ENCFF886VSU/@@download/ENCFF886VSU.bed.gz	hg19			released				
ENCFF566WSG	bed narrowPeak	optimal idr thresholded peaks	ENCSR382MOM	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				YY1-human	DNA					False	2016-03-31	ENCODE				1, 2							ENCFF001TDO, ENCFF079CJA, ENCFF086YFF, ENCFF884TKH	1009004	ENCODE Processing Pipeline	1bd5d50abbe1d858675db04c9d86fd4a		https://www.encodeproject.org/files/ENCFF566WSG/@@download/ENCFF566WSG.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF603OCV	bed narrowPeak	optimal idr thresholded peaks	ENCSR382MOM	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				YY1-human	DNA					False	2016-03-31	ENCODE				1, 2							ENCFF001TDO, ENCFF061SPB, ENCFF335ZZX, ENCFF800NJQ	875622	ENCODE Processing Pipeline	d4db56cba78dbb66b37446153ce0a506		https://www.encodeproject.org/files/ENCFF603OCV/@@download/ENCFF603OCV.bed.gz	hg19			archived	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF144PPR	bed narrowPeak	optimal idr thresholded peaks	ENCSR837EYC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NRF1-human	DNA					False	2016-06-16	ENCODE				1, 2							ENCFF001TDO, ENCFF559ITE, ENCFF606MZK, ENCFF892HJT	370811	ENCODE Processing Pipeline	ed341ef382b1729a4467c26b9d7afc00		https://www.encodeproject.org/files/ENCFF144PPR/@@download/ENCFF144PPR.bed.gz	hg19			released	low read depth, moderate library complexity			
ENCFF266KLW	bed narrowPeak	optimal idr thresholded peaks	ENCSR338MMB	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				NR2F2-human	DNA					False	2016-08-24	ENCODE				1, 2							ENCFF001TDO, ENCFF348QEP, ENCFF525BTB, ENCFF617HUR	507212	ENCODE Processing Pipeline	2732be2073a35bea7c8e899b526ee7f5		https://www.encodeproject.org/files/ENCFF266KLW/@@download/ENCFF266KLW.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF133YMX	bed narrowPeak	optimal idr thresholded peaks	ENCSR338MMB	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				NR2F2-human	DNA					False	2016-08-24	ENCODE				1, 2							ENCFF001TDO, ENCFF150BYS, ENCFF495GMC, ENCFF775AMH	428177	ENCODE Processing Pipeline	a5fe216065e927a3391b4d54d418aa78		https://www.encodeproject.org/files/ENCFF133YMX/@@download/ENCFF133YMX.bed.gz	hg19			archived	mild to moderate bottlenecking, low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF177FZU	bed narrowPeak	optimal idr thresholded peaks	ENCSR848YWD	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZMYM3-human	DNA					False	2016-09-23	ENCODE				1, 2							ENCFF001TDO, ENCFF136ODS, ENCFF575WAU, ENCFF629JUA	201045	ENCODE Processing Pipeline	f15f87c10854c7ddee174962575bc02e		https://www.encodeproject.org/files/ENCFF177FZU/@@download/ENCFF177FZU.bed.gz	hg19			released	low read depth, antibody characterized with exemption, mixed read lengths			
ENCFF003GNY	bed narrowPeak	optimal idr thresholded peaks	ENCSR853ADA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NRF1-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF436LYU, ENCFF518DDL, ENCFF533OLJ	280925	ENCODE Processing Pipeline	c43e409d329170937ef998c5d5e77be0		https://www.encodeproject.org/files/ENCFF003GNY/@@download/ENCFF003GNY.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF059ONJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR390VGH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MNT-human	DNA					False	2017-01-27	ENCODE				1, 2							ENCFF001TDO, ENCFF191KTX, ENCFF260JMM, ENCFF431KXB	698405	ENCODE Processing Pipeline	b90c66a28237946beae947f6c6d02cdd		https://www.encodeproject.org/files/ENCFF059ONJ/@@download/ENCFF059ONJ.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF447FPV	bed narrowPeak	optimal idr thresholded peaks	ENCSR231YFE	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZBTB33-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF515ZCN, ENCFF613ONR, ENCFF684BFS	172266	ENCODE Processing Pipeline	b97a0af53cba492b881017ed8ba0ea15		https://www.encodeproject.org/files/ENCFF447FPV/@@download/ENCFF447FPV.bed.gz	hg19			released	borderline replicate concordance			
ENCFF587EOD	bed narrowPeak	optimal idr thresholded peaks	ENCSR006WUS	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				NEUROD1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF013MRQ, ENCFF503OBN, ENCFF512ZVD	119114	ENCODE Processing Pipeline	05c041dc76a925fa1f284c6192e9941c		https://www.encodeproject.org/files/ENCFF587EOD/@@download/ENCFF587EOD.bed.gz	hg19			released	borderline replicate concordance, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF693JHE	bed narrowPeak	optimal idr thresholded peaks	ENCSR903ELW	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CREM-human	DNA					False	2016-08-24	ENCODE				1, 2							ENCFF001TDO, ENCFF029FHZ, ENCFF467KJE, ENCFF997CFJ	519466	ENCODE Processing Pipeline	d6588d01138beb53cf9323ee986d3fd8		https://www.encodeproject.org/files/ENCFF693JHE/@@download/ENCFF693JHE.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF233DOW	bed narrowPeak	optimal idr thresholded peaks	ENCSR635OSG	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				RAD21-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF501YCY, ENCFF654DFC, ENCFF800RTH	385302	ENCODE Processing Pipeline	4a40fd4a80e95f2166f4d6e2694c136a		https://www.encodeproject.org/files/ENCFF233DOW/@@download/ENCFF233DOW.bed.gz	hg19			released	low read length, antibody characterized with exemption, inconsistent target of control experiment	experiment not submitted to GEO	missing input control	
ENCFF108ZTV	bed narrowPeak	optimal idr thresholded peaks	ENCSR917QNE	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				RAD21-human	DNA					False	2016-10-12	ENCODE				1, 2							ENCFF001TDO, ENCFF044MZF, ENCFF727LYG, ENCFF846YGT	1008002	ENCODE Processing Pipeline	524494eb4a5d531f9c8a7c43202a4027		https://www.encodeproject.org/files/ENCFF108ZTV/@@download/ENCFF108ZTV.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF675ZHC	bed narrowPeak	optimal idr thresholded peaks	ENCSR634ZGP	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				UBTF-human	DNA					False	2016-07-28	ENCODE				1, 2							ENCFF001TDO, ENCFF149RTO, ENCFF312HIY, ENCFF607MHD	19622	ENCODE Processing Pipeline	9c7c4f4820d59882e08fa26874ded8ba		https://www.encodeproject.org/files/ENCFF675ZHC/@@download/ENCFF675ZHC.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity			
ENCFF173VKA	bed narrowPeak	optimal idr thresholded peaks	ENCSR125ZYC	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				eGFP-KLF9-human	DNA					False	2016-06-13	ENCODE				3, 4							ENCFF001TDO, ENCFF328SGB, ENCFF517BWM, ENCFF667SOI	295179	ENCODE Processing Pipeline	458c3469b2c62eeda6604910e45cbd66		https://www.encodeproject.org/files/ENCFF173VKA/@@download/ENCFF173VKA.bed.gz	hg19			released	control low read depth, low read depth, missing genetic modification characterization			
ENCFF693FRV	bed narrowPeak	optimal idr thresholded peaks	ENCSR196HGZ	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				JUND-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF063GQS, ENCFF567PTY, ENCFF755MSZ	394305	ENCODE Processing Pipeline	433d0c39ff3942ba18f059f8a4b159d1		https://www.encodeproject.org/files/ENCFF693FRV/@@download/ENCFF693FRV.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF340PPI	bed narrowPeak	optimal idr thresholded peaks	ENCSR695EQB	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF24-human	DNA					False	2017-01-27	ENCODE				1, 2							ENCFF001TDO, ENCFF309SZA, ENCFF720BVJ, ENCFF924XOY	530134	ENCODE Processing Pipeline	9a398398d2c9211d4896d977bf907b72		https://www.encodeproject.org/files/ENCFF340PPI/@@download/ENCFF340PPI.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF884GAH	bed narrowPeak	optimal idr thresholded peaks	ENCSR094ZCF	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				eGFP-CEBPG-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF223YLF, ENCFF381BVK, ENCFF482DDO	234617	ENCODE Processing Pipeline	16716888547d8fbfce198b63ad9fb09b		https://www.encodeproject.org/files/ENCFF884GAH/@@download/ENCFF884GAH.bed.gz	hg19			released	control low read depth, missing genetic modification characterization			
ENCFF851HUJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR994YLZ	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				YY1-human	DNA					False	2016-03-31	ENCODE				1, 2							ENCFF001TDO, ENCFF435XEZ, ENCFF683XUE, ENCFF917NOB	536405	ENCODE Processing Pipeline	b5663d4401ea20f7753e2b2485e7e4ae		https://www.encodeproject.org/files/ENCFF851HUJ/@@download/ENCFF851HUJ.bed.gz	hg19			released	low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF214QUX	bed narrowPeak	optimal idr thresholded peaks	ENCSR994YLZ	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				YY1-human	DNA					False	2016-03-31	ENCODE				1, 2							ENCFF001TDO, ENCFF396QYK, ENCFF579AYO, ENCFF642PNJ	501080	ENCODE Processing Pipeline	7371981ddd260e640ca4863cbb1d94bd		https://www.encodeproject.org/files/ENCFF214QUX/@@download/ENCFF214QUX.bed.gz	hg19			archived	low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF493ABN	bed narrowPeak	optimal idr thresholded peaks	ENCSR998AJK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NRF1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF113EKC, ENCFF288BMB, ENCFF406JKC	684973	ENCODE Processing Pipeline	d5fff8c03ee7b8067da264cb490f4327		https://www.encodeproject.org/files/ENCFF493ABN/@@download/ENCFF493ABN.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF809MSQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR998AJK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NRF1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF138RWJ, ENCFF263SML, ENCFF978MYZ	603740	ENCODE Processing Pipeline	c5c300d8c24705b1cf027b0ddc4468af		https://www.encodeproject.org/files/ENCFF809MSQ/@@download/ENCFF809MSQ.bed.gz	hg19			archived	mild to moderate bottlenecking			
ENCFF887LHM	bed narrowPeak	optimal idr thresholded peaks	ENCSR617RSQ	ChIP-seq	EFO:0002074	PC-3	cell line	Homo sapiens				EZH2phosphoT487-human	DNA					False	2018-02-06	ENCODE				1, 2							ENCFF001TDO, ENCFF582UCY, ENCFF724ZSR, ENCFF853YEV	72796	ENCODE Processing Pipeline	31cf866fcc209e6d4489baee92e9fcd2		https://www.encodeproject.org/files/ENCFF887LHM/@@download/ENCFF887LHM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF074EZL	bed narrowPeak	optimal idr thresholded peaks	ENCSR085QEV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NBN-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF021DHZ, ENCFF032UMZ, ENCFF650HMR	321865	ENCODE Processing Pipeline	7e52fb41f5a8121abd5a3b5a07f42747		https://www.encodeproject.org/files/ENCFF074EZL/@@download/ENCFF074EZL.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF328IOZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR886KKK	ChIP-seq	CL:0000103	bipolar neuron	in vitro differentiated cells	Homo sapiens	doxycycline hyclate	0.5 μg/mL	4 day	EZH2phosphoT487-human	DNA					False	2016-11-23	ENCODE				1, 2							ENCFF001TDO, ENCFF488KHJ, ENCFF625OET, ENCFF957ZSV	682251	ENCODE Processing Pipeline	d07cb5c747bbb0c732e3f46f2e793a4b		https://www.encodeproject.org/files/ENCFF328IOZ/@@download/ENCFF328IOZ.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption	NTR biosample		
ENCFF203REX	bed narrowPeak	optimal idr thresholded peaks	ENCSR872BOU	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				FOXK2-human	DNA					False	2016-11-18	ENCODE				1, 2							ENCFF001TDO, ENCFF355FZF, ENCFF628SZN, ENCFF898EEY	40876	ENCODE Processing Pipeline	42a3aa6efd4c39b384ad98bd78994d4b		https://www.encodeproject.org/files/ENCFF203REX/@@download/ENCFF203REX.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF862SRI	bed narrowPeak	optimal idr thresholded peaks	ENCSR736BUG	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				EGR1-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF484TJY, ENCFF560WHY, ENCFF876JTC	350114	ENCODE Processing Pipeline	1c6811d4053f35decc7973fcf5f8f7b5		https://www.encodeproject.org/files/ENCFF862SRI/@@download/ENCFF862SRI.bed.gz	hg19			released	low read depth, antibody characterized with exemption	biological replicates with identical biosample, experiment not submitted to GEO		
ENCFF189HPG	bed narrowPeak	optimal idr thresholded peaks	ENCSR098XMN	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				RXRA-human	DNA					False	2018-02-06	ENCODE				1, 2							ENCFF001TDO, ENCFF183ZZZ, ENCFF255SKA, ENCFF515RCQ	1202043	ENCODE Processing Pipeline	c170b33e7b6fce92b71adc330e097600		https://www.encodeproject.org/files/ENCFF189HPG/@@download/ENCFF189HPG.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample, experiment not submitted to GEO		
ENCFF272ULO	bed narrowPeak	optimal idr thresholded peaks	ENCSR490LWA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-CEBPG-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF183FOU, ENCFF335AYY, ENCFF880AEL	839761	ENCODE Processing Pipeline	29d7e21f3c25f41bd7185514faa49553		https://www.encodeproject.org/files/ENCFF272ULO/@@download/ENCFF272ULO.bed.gz	hg19			released	missing genetic modification characterization			
ENCFF513RIQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR764CZW	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZNF217-human	DNA					False	2017-06-07	ENCODE				1, 2							ENCFF001TDO, ENCFF021SAT, ENCFF589PUL, ENCFF736WSI	393714	ENCODE Processing Pipeline	d44225226240074d5eaa115e9fe46731		https://www.encodeproject.org/files/ENCFF513RIQ/@@download/ENCFF513RIQ.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF244ORA	bed narrowPeak	optimal idr thresholded peaks	ENCSR681WHQ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ETS1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF338MRR, ENCFF749DAY, ENCFF771MQQ	165448	ENCODE Processing Pipeline	0915fff499818a173ad96b6a1787bbb4		https://www.encodeproject.org/files/ENCFF244ORA/@@download/ENCFF244ORA.bed.gz	hg19			released	low read length	experiment not submitted to GEO	partially characterized antibody	
ENCFF162RSN	bed narrowPeak	optimal idr thresholded peaks	ENCSR701AQS	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZNF592-human	DNA					False	2016-10-31	ENCODE				1, 2							ENCFF001TDO, ENCFF458XHM, ENCFF824NFX, ENCFF844ATW	146581	ENCODE Processing Pipeline	7926bf331b2624cf38b2085c98494160		https://www.encodeproject.org/files/ENCFF162RSN/@@download/ENCFF162RSN.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF313TUJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR423RTK	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				GATA3-human	DNA					False	2016-10-26	ENCODE				1, 2							ENCFF001TDO, ENCFF161DQL, ENCFF863GRL, ENCFF874LLH	1016007	ENCODE Processing Pipeline	295d315f78e8a854456cd97621e2911d		https://www.encodeproject.org/files/ENCFF313TUJ/@@download/ENCFF313TUJ.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity	experiment not submitted to GEO	poor library complexity, severe bottlenecking	
ENCFF120WOF	bed narrowPeak	optimal idr thresholded peaks	ENCSR845BCL	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-ZNF639-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF433SFB, ENCFF543QKR, ENCFF816KBT	407319	ENCODE Processing Pipeline	ad9c782b246e9bfbb2a00cdbb89a7885		https://www.encodeproject.org/files/ENCFF120WOF/@@download/ENCFF120WOF.bed.gz	hg19			released	low read depth, missing genetic modification characterization			
ENCFF922GXT	bed narrowPeak	optimal idr thresholded peaks	ENCSR986XYK	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				PKNOX1-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF117BUH, ENCFF648CSH, ENCFF687IUI	555528	ENCODE Processing Pipeline	dcc62a783ecd9b7707f05d42b9c52d1a		https://www.encodeproject.org/files/ENCFF922GXT/@@download/ENCFF922GXT.bed.gz	hg19			released				
ENCFF063WXY	bed narrowPeak	optimal idr thresholded peaks	ENCSR793HVL	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				E2F8-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF437MOX, ENCFF482LKM, ENCFF706SMS	134101	ENCODE Processing Pipeline	4c972067fd18a0101bf8d3c87a5f66f9		https://www.encodeproject.org/files/ENCFF063WXY/@@download/ENCFF063WXY.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity	experiment not submitted to GEO	partially characterized antibody	
ENCFF562JDH	bed narrowPeak	optimal idr thresholded peaks	ENCSR075HTM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HDAC2-human	DNA					False	2016-10-31	ENCODE				1, 2							ENCFF001TDO, ENCFF074FFL, ENCFF810MGC, ENCFF888AZU	563260	ENCODE Processing Pipeline	cc91f30f2f516fcd7c689ded645811d5		https://www.encodeproject.org/files/ENCFF562JDH/@@download/ENCFF562JDH.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF129AXO	bed narrowPeak	optimal idr thresholded peaks	ENCSR864KNH	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				YBX1-human	DNA					False	2016-09-20	ENCODE				1, 2							ENCFF001TDO, ENCFF342POD, ENCFF588PWO, ENCFF820VNX	65925	ENCODE Processing Pipeline	bb0020b88970e0f9422e3ea7aa6589dc		https://www.encodeproject.org/files/ENCFF129AXO/@@download/ENCFF129AXO.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption			
ENCFF051JAE	bed narrowPeak	optimal idr thresholded peaks	ENCSR096KWU	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZNF207-human	DNA					False	2016-09-01	ENCODE				1, 2							ENCFF001TDO, ENCFF454VVC, ENCFF517DCO, ENCFF669TVR	82712	ENCODE Processing Pipeline	8a2fc35aff0d987b23d18f62f4c51018		https://www.encodeproject.org/files/ENCFF051JAE/@@download/ENCFF051JAE.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption			
ENCFF178MOP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FCD	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SMAD5-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF131YKB, ENCFF235FTG, ENCFF875TQG	398842	ENCODE Processing Pipeline	8793c337b4cbb250f1ea3226f4282427		https://www.encodeproject.org/files/ENCFF178MOP/@@download/ENCFF178MOP.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF235RIU	bed narrowPeak	optimal idr thresholded peaks	ENCSR876UYH	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZHX2-human	DNA					False	2016-11-08	ENCODE				1, 2							ENCFF001TDO, ENCFF128RLF, ENCFF386GSB, ENCFF487NKY	141623	ENCODE Processing Pipeline	dc7415cabbd37772afab2cd1348c825c		https://www.encodeproject.org/files/ENCFF235RIU/@@download/ENCFF235RIU.bed.gz	hg19			released	borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF973LDQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR099NCH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF24-human	DNA					False	2016-07-28	ENCODE				1, 2							ENCFF001TDO, ENCFF131ZOO, ENCFF716AIG, ENCFF877PNB	405803	ENCODE Processing Pipeline	5aced2d7e389eb5908524ecfd6ae9e02		https://www.encodeproject.org/files/ENCFF973LDQ/@@download/ENCFF973LDQ.bed.gz	hg19			released	low read depth			
ENCFF457PCA	bed narrowPeak	optimal idr thresholded peaks	ENCSR656MXA	ChIP-seq	NTR:0000711	neural progenitor cell	in vitro differentiated cells	Homo sapiens				EZH2phosphoT487-human	DNA					False	2017-02-03	ENCODE				1, 2							ENCFF001TDO, ENCFF275QAK, ENCFF624UCY, ENCFF915JWV	398387	ENCODE Processing Pipeline	f73657ee4c68fe21fffa416f781b37f1		https://www.encodeproject.org/files/ENCFF457PCA/@@download/ENCFF457PCA.bed.gz	hg19			released	antibody characterized with exemption	NTR biosample		
ENCFF567MGV	bed narrowPeak	optimal idr thresholded peaks	ENCSR465XQW	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZNF217-human	DNA					False	2017-06-23	ENCODE				1, 2							ENCFF001TDO, ENCFF260SLH, ENCFF931OYK, ENCFF959GOJ	582289	ENCODE Processing Pipeline	cc41dcfc4a3489a23dc37698413157be		https://www.encodeproject.org/files/ENCFF567MGV/@@download/ENCFF567MGV.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample		
ENCFF961BQJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR503VTG	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZNF24-human	DNA					False	2017-06-26	ENCODE				1, 2							ENCFF001TDO, ENCFF020XZH, ENCFF239APD, ENCFF372IMH	262129	ENCODE Processing Pipeline	4b9cc48324b14cbed91146b560fc8b98		https://www.encodeproject.org/files/ENCFF961BQJ/@@download/ENCFF961BQJ.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption			
ENCFF481WGW	bed narrowPeak	optimal idr thresholded peaks	ENCSR336DXE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SKIL-human	DNA					False	2017-06-29	ENCODE				2, 3							ENCFF001TDO, ENCFF264IPL, ENCFF476KBA, ENCFF501IBL	449348	ENCODE Processing Pipeline	9d5b80adbb13a11fc2daf31c2c04992c		https://www.encodeproject.org/files/ENCFF481WGW/@@download/ENCFF481WGW.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF002CUL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDU	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MXI1-human	DNA		see document	see document		False	2012-08-20	ENCODE												521816	ENCODE Consortium Analysis Working Group	abb524e774342f5ff70c2f52ffe5ca43		https://www.encodeproject.org/files/ENCFF002CUL/@@download/ENCFF002CUL.bed.gz	hg19			released	low read length, inconsistent platforms	biological replicates with identical biosample, missing derived_from		
ENCFF556PIY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYS	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF033WHB, ENCFF435ICE, ENCFF811UJD	138991	ENCODE Processing Pipeline	c91d4953e458d7a3d972d8ce9494ff67		https://www.encodeproject.org/files/ENCFF556PIY/@@download/ENCFF556PIY.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CNJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJJ	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE												358708	ENCODE Consortium Analysis Working Group	1049533d6b97f7574b73c5a0e67a3edf		https://www.encodeproject.org/files/ENCFF002CNJ/@@download/ENCFF002CNJ.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from	control insufficient read depth, insufficient replicate concordance	
ENCFF946MYA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJJ	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF458KOT, ENCFF639APX, ENCFF644HHB	46236	ENCODE Processing Pipeline	e416fd7813f52a1578336e19c89685f0		https://www.encodeproject.org/files/ENCFF946MYA/@@download/ENCFF946MYA.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample	control insufficient read depth, insufficient replicate concordance	
ENCFF002CQN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBM	ChIP-seq	EFO:0005351	GM19193	cell line	Homo sapiens	tumor necrosis factor	25 ng/mL	6 hour	RELA-human	DNA		see document	see document		False	2011-10-29	ENCODE												132471	ENCODE Consortium Analysis Working Group	d83a56196c352fed47578071ddf43b40		https://www.encodeproject.org/files/ENCFF002CQN/@@download/ENCFF002CQN.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF455HXN	bed narrowPeak	optimal idr thresholded peaks	ENCSR412YGM	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZSCAN29-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF003TOD, ENCFF306UPG, ENCFF781FBO	142613	ENCODE Processing Pipeline	9e9e89c3678bd6eabbfa0df644c7f166		https://www.encodeproject.org/files/ENCFF455HXN/@@download/ENCFF455HXN.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF658MKE	bed narrowPeak	optimal idr thresholded peaks	ENCSR460LGH	ChIP-seq	EFO:0006365	C4-2B	cell line	Homo sapiens				CTCF-human	DNA					False	2017-07-21	ENCODE				1, 2							ENCFF001TDO, ENCFF328CFX, ENCFF465DTB, ENCFF508LBP	1695710	ENCODE Processing Pipeline	262873360f58bf6d1bee505e706eb21c		https://www.encodeproject.org/files/ENCFF658MKE/@@download/ENCFF658MKE.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF002CNH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGB	ChIP-seq	EFO:0002860	SK-N-MC	cell line	Homo sapiens				FOXP2-human	DNA		see document	see document		False	2011-07-18	ENCODE												299329	ENCODE Consortium Analysis Working Group	a744075d752f05f90fc61e946d27754c		https://www.encodeproject.org/files/ENCFF002CNH/@@download/ENCFF002CNH.bed.gz	hg19			archived	mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth	control extremely low read depth, extremely low read length
ENCFF398FBV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGB	ChIP-seq	EFO:0002860	SK-N-MC	cell line	Homo sapiens				FOXP2-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF510WZL, ENCFF718CML, ENCFF954MNX	185148	ENCODE Processing Pipeline	efd800edbc1a0fba7b1c1a1ec8fb415d		https://www.encodeproject.org/files/ENCFF398FBV/@@download/ENCFF398FBV.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	insufficient read depth	control extremely low read depth, extremely low read length
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				
ENCFF643OWO	bed narrowPeak	optimal idr thresholded peaks	ENCSR859FDL	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZNF687-human	DNA					False	2017-06-26	ENCODE				1, 2							ENCFF001TDO, ENCFF052WWT, ENCFF348CSG, ENCFF665KNY	594294	ENCODE Processing Pipeline	e97fb90edf8b142381499be4561ffb6e		https://www.encodeproject.org/files/ENCFF643OWO/@@download/ENCFF643OWO.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF132QLW	bed narrowPeak	optimal idr thresholded peaks	ENCSR145BHD	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NFRKB-human	DNA					False	2017-06-29	ENCODE				3, 4							ENCFF001TDO, ENCFF205IWA, ENCFF281WBT, ENCFF724KFJ	47424	ENCODE Processing Pipeline	5a36af6c01b964b6983e7d773ad1b220		https://www.encodeproject.org/files/ENCFF132QLW/@@download/ENCFF132QLW.bed.gz	hg19			released				
ENCFF002CEL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AKO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE												1231983	ENCODE Consortium Analysis Working Group	7ddb20610be6d90b16f37e167c79f019		https://www.encodeproject.org/files/ENCFF002CEL/@@download/ENCFF002CEL.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, mixed read lengths	missing derived_from	insufficient read depth	
ENCFF949QZO	bed narrowPeak	optimal idr thresholded peaks	ENCSR924TVL	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				RFX5-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF366JFG, ENCFF376EFD, ENCFF458VAF	216700	ENCODE Processing Pipeline	d9edd7a6a711bbc6213e1cd02d1230f2		https://www.encodeproject.org/files/ENCFF949QZO/@@download/ENCFF949QZO.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF415WEH	bed narrowPeak	optimal idr thresholded peaks	ENCSR659LJJ	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				HDAC2-human	DNA					False	2016-11-23	ENCODE				1, 2							ENCFF001TDO, ENCFF047HRL, ENCFF480BUU, ENCFF869FPC	69758	ENCODE Processing Pipeline	e570ad6a282afc9b551d1bc3c785260e		https://www.encodeproject.org/files/ENCFF415WEH/@@download/ENCFF415WEH.bed.gz	hg19			released				missing control alignments
ENCFF849UJR	bed narrowPeak	optimal idr thresholded peaks	ENCSR638QYO	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				SREBF2-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF373ECD, ENCFF757QKH, ENCFF945PVC	15537	ENCODE Processing Pipeline	18ce94b154e37d7126b3dabeec5e01e6		https://www.encodeproject.org/files/ENCFF849UJR/@@download/ENCFF849UJR.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity			
ENCFF860MVU	bed narrowPeak	optimal idr thresholded peaks	ENCSR638QYO	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				SREBF2-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF679OFK, ENCFF681JGU, ENCFF901URI	16737	ENCODE Processing Pipeline	c454af9c000fbbe591ead3ae39cb1f8d		https://www.encodeproject.org/files/ENCFF860MVU/@@download/ENCFF860MVU.bed.gz	hg19			archived	mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity			
ENCFF671BJT	bed narrowPeak	optimal idr thresholded peaks	ENCSR465VLK	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				FOXK2-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF462LEE, ENCFF500PCI, ENCFF610BOW	38217	ENCODE Processing Pipeline	ad302231cc0be974b9752e50205047a1		https://www.encodeproject.org/files/ENCFF671BJT/@@download/ENCFF671BJT.bed.gz	hg19			released	borderline replicate concordance			
ENCFF573ALP	bed narrowPeak	optimal idr thresholded peaks	ENCSR334KIQ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				SP1-human	DNA					False	2016-10-31	ENCODE				1, 2							ENCFF001TDO, ENCFF894JDZ, ENCFF894RIX, ENCFF904OAW	35549	ENCODE Processing Pipeline	e3b333943669cf298b44651490ef0df4		https://www.encodeproject.org/files/ENCFF573ALP/@@download/ENCFF573ALP.bed.gz	hg19			released				
ENCFF164EJE	bed narrowPeak	optimal idr thresholded peaks	ENCSR560BUE	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2017-10-19	ENCODE				1, 2							ENCFF001TDO, ENCFF086WBN, ENCFF724MMC, ENCFF849TKV	948209	ENCODE Processing Pipeline	1dfc11608ac341e8e3002b060457b7b6		https://www.encodeproject.org/files/ENCFF164EJE/@@download/ENCFF164EJE.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF146HGZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR435OQD	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZFX-human	DNA					False	2017-07-21	ENCODE				1, 2							ENCFF001TDO, ENCFF222IPA, ENCFF340IJR, ENCFF795HRT	453992	ENCODE Processing Pipeline	5b42ec5877c4a8ed087f9056524528d1		https://www.encodeproject.org/files/ENCFF146HGZ/@@download/ENCFF146HGZ.bed.gz	hg19			released	borderline replicate concordance	NTR biosample		
ENCFF949EAE	bed narrowPeak	optimal idr thresholded peaks	ENCSR894SXR	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TCF12-human	DNA					False	2017-06-07	ENCODE				1, 2							ENCFF001TDO, ENCFF208MYK, ENCFF378WXQ, ENCFF661IHD	5699	ENCODE Processing Pipeline	ce4bb6cb1145b13af954783f501088d3		https://www.encodeproject.org/files/ENCFF949EAE/@@download/ENCFF949EAE.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption			
ENCFF134NMW	bed narrowPeak	optimal idr thresholded peaks	ENCSR415TXN	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NONO-human	DNA			SDS	formaldehyde	False	2017-02-27	ENCODE				1, 2							ENCFF001TDO, ENCFF028TZK, ENCFF609LOZ, ENCFF882WGE	90103	ENCODE Processing Pipeline	e27dcf77f1ba6a47765799b317b359ae		https://www.encodeproject.org/files/ENCFF134NMW/@@download/ENCFF134NMW.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF265NSP	bed narrowPeak	optimal idr thresholded peaks	ENCSR979FQP	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				GATAD2B-human	DNA					False	2017-09-29	ENCODE				1, 2							ENCFF001TDO, ENCFF042JUH, ENCFF056MRN, ENCFF930UBG	199333	ENCODE Processing Pipeline	3504216ffa027cded0fa19b18135462b		https://www.encodeproject.org/files/ENCFF265NSP/@@download/ENCFF265NSP.bed.gz	hg19			released				
ENCFF685KAG	bed narrowPeak	optimal idr thresholded peaks	ENCSR290MUH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-GABPA-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF026SKI, ENCFF835LBQ, ENCFF845TET	590608	ENCODE Processing Pipeline	2642e3d21c71e17716b79b0496bbf05b		https://www.encodeproject.org/files/ENCFF685KAG/@@download/ENCFF685KAG.bed.gz	hg19			released	low read depth, missing genetic modification characterization			
ENCFF276KYQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR534VHI	ChIP-seq	EFO:0007950	GM23338	induced pluripotent stem cell line	Homo sapiens				ETS1-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF389SGB, ENCFF784MYN, ENCFF824HYC	188145	ENCODE Processing Pipeline	fc36640405c7258cce065ca68d02f2fc		https://www.encodeproject.org/files/ENCFF276KYQ/@@download/ENCFF276KYQ.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption			missing control alignments
ENCFF794MHJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR534VHI	ChIP-seq	EFO:0007950	GM23338	induced pluripotent stem cell line	Homo sapiens				ETS1-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF435AEO, ENCFF856AFV, ENCFF879HCW	152698	ENCODE Processing Pipeline	28bd1c40b861835abf7bdeae27518a7e		https://www.encodeproject.org/files/ENCFF794MHJ/@@download/ENCFF794MHJ.bed.gz	hg19			archived	borderline replicate concordance, antibody characterized with exemption			missing control alignments
ENCFF704ZYN	bed narrowPeak	optimal idr thresholded peaks	ENCSR437GBJ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFATC3-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF452APP, ENCFF473OII, ENCFF549TIS	449441	ENCODE Processing Pipeline	d57b85ace159f8e7ba3cdff45e9b3338		https://www.encodeproject.org/files/ENCFF704ZYN/@@download/ENCFF704ZYN.bed.gz	hg19			released	mild to moderate bottlenecking, inconsistent platforms, moderate library complexity	experiment not submitted to GEO	poor library complexity, severe bottlenecking, partially characterized antibody	
ENCFF002COX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZA	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MAZ-human	DNA		see document	see document		False	2012-05-14	ENCODE												487628	ENCODE Consortium Analysis Working Group	4fbb1074820a315f2c46941fd87d8591		https://www.encodeproject.org/files/ENCFF002COX/@@download/ENCFF002COX.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF066XDW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZA	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MAZ-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF007UID, ENCFF138BYH, ENCFF440OBY	438480	ENCODE Processing Pipeline	819540d756d42218522ec2e8fd9c0b87		https://www.encodeproject.org/files/ENCFF066XDW/@@download/ENCFF066XDW.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF713MCF	bed narrowPeak	optimal idr thresholded peaks	ENCSR601OGE	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				HNF4A-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF022XIX, ENCFF240XXW, ENCFF839MCU	1254968	ENCODE Processing Pipeline	2054296572380b63d6dedec1cf356f04		https://www.encodeproject.org/files/ENCFF713MCF/@@download/ENCFF713MCF.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF804UDG	bed narrowPeak	optimal idr thresholded peaks	ENCSR837GTK	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				JUND-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF301CFJ, ENCFF373EUK, ENCFF436DJC	621826	ENCODE Processing Pipeline	4831345a4a86188eac653f2ee5b01725		https://www.encodeproject.org/files/ENCFF804UDG/@@download/ENCFF804UDG.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF002CEA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARI	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE												86666	ENCODE Consortium Analysis Working Group	40f6649223742480c7730318309b7323		https://www.encodeproject.org/files/ENCFF002CEA/@@download/ENCFF002CEA.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from		
ENCFF493FED	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARI	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE				1, 2							ENCFF001TDO, ENCFF199MPQ, ENCFF670QJS, ENCFF677XOS	108726	ENCODE Processing Pipeline	9910bb382e3170e3889630548487d0bb		https://www.encodeproject.org/files/ENCFF493FED/@@download/ENCFF493FED.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF002CWE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		6.0 hour	MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE												229866	ENCODE Consortium Analysis Working Group	621f5c78a485d7d2f5774a508d526313		https://www.encodeproject.org/files/ENCFF002CWE/@@download/ENCFF002CWE.bed.gz	hg19			archived	control low read depth, mixed read lengths	missing derived_from, biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF387LTN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		6.0 hour	MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF028OCG, ENCFF837BDB, ENCFF951BWR	214182	ENCODE Processing Pipeline	7f880cffb36b0f56b3b62739e6b4b1b4		https://www.encodeproject.org/files/ENCFF387LTN/@@download/ENCFF387LTN.bed.gz	hg19			released	control low read depth, mixed read lengths	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CLS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-02-29	ENCODE												892491	ENCODE Consortium Analysis Working Group	749db3fdd18af5e96e12683dc67852b6		https://www.encodeproject.org/files/ENCFF002CLS/@@download/ENCFF002CLS.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF085HTY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF235AXH, ENCFF443OXB, ENCFF815GMT	795526	ENCODE Processing Pipeline	ef53728caa8d0b461eed1f1fd335edf4		https://www.encodeproject.org/files/ENCFF085HTY/@@download/ENCFF085HTY.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF265QRY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EIA	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				MXI1-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF194TDU, ENCFF371MFR, ENCFF970VRK	704022	ENCODE Processing Pipeline	3d45d307ba38c7aae59c8bf33021fc47		https://www.encodeproject.org/files/ENCFF265QRY/@@download/ENCFF265QRY.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CKV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLW	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-07-18	ENCODE												652956	ENCODE Consortium Analysis Working Group	551ba2c2a796f4754ea17a42edf95bd9		https://www.encodeproject.org/files/ENCFF002CKV/@@download/ENCFF002CKV.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF547POU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLW	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF397JOR, ENCFF906ESV, ENCFF908HDQ	549606	ENCODE Processing Pipeline	413e4eb5d23e404dfb66b7c3d8069a71		https://www.encodeproject.org/files/ENCFF547POU/@@download/ENCFF547POU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF002CZV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXP	ChIP-seq	CL:0000765	erythroblast	primary cell	Homo sapiens				GATA1-human	DNA		see document	see document		False	2011-10-29	ENCODE												495881	ENCODE Consortium Analysis Working Group	001be63af869fbaa551e413332d0a0b0		https://www.encodeproject.org/files/ENCFF002CZV/@@download/ENCFF002CZV.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read depth, severe bottlenecking	
ENCFF957CWW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXP	ChIP-seq	CL:0000765	erythroblast	primary cell	Homo sapiens				GATA1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF091ANC, ENCFF330USX, ENCFF372YKO	613178	ENCODE Processing Pipeline	e9169de25a7d1181ae006801678cc91c		https://www.encodeproject.org/files/ENCFF957CWW/@@download/ENCFF957CWW.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	insufficient read depth, severe bottlenecking	
ENCFF334FKO	bed narrowPeak	optimal idr thresholded peaks	ENCSR893QWP	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				REST-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF363JNV, ENCFF506HHV, ENCFF592OPP	346822	ENCODE Processing Pipeline	c1655be4d3dc99d5b6dc81ee253bcce4		https://www.encodeproject.org/files/ENCFF334FKO/@@download/ENCFF334FKO.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF874DDR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMY	ChIP-seq	EFO:0002939	medulloblastoma	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF012GOG, ENCFF525QBA, ENCFF550YRO	699291	ENCODE Processing Pipeline	09f2bc62227b28b0550ce5999dd49d02		https://www.encodeproject.org/files/ENCFF874DDR/@@download/ENCFF874DDR.bed.gz	hg19			released	control low read depth, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		missing control alignments
ENCFF002CIQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLT	ChIP-seq	EFO:0002786	GM12892	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE												314930	ENCODE Consortium Analysis Working Group	2e6452116f6209adbe07483c03da261b		https://www.encodeproject.org/files/ENCFF002CIQ/@@download/ENCFF002CIQ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF667URP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLT	ChIP-seq	EFO:0002786	GM12892	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF311HXH, ENCFF434TLG, ENCFF797ZRE	329888	ENCODE Processing Pipeline	691ee9a84e6688bc1a23a04fcd3fb199		https://www.encodeproject.org/files/ENCFF667URP/@@download/ENCFF667URP.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002CYQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWF	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-10-29	ENCODE												104777	ENCODE Consortium Analysis Working Group	940cef4ff84d4b47a11d8fd9e57f53ca		https://www.encodeproject.org/files/ENCFF002CYQ/@@download/ENCFF002CYQ.bed.gz	hg19			archived	borderline replicate concordance	missing derived_from, biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF557DSM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWF	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF211PND, ENCFF228AYO, ENCFF899XEM	93049	ENCODE Processing Pipeline	cf8ffec94a9b83f40812443c565a6a17		https://www.encodeproject.org/files/ENCFF557DSM/@@download/ENCFF557DSM.bed.gz	hg19			released	borderline replicate concordance	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF566FVB	bed narrowPeak	optimal idr thresholded peaks	ENCSR205FOW	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				ATF3-human	DNA					False	2016-03-31	ENCODE				1, 2							ENCFF001TDO, ENCFF025EPQ, ENCFF515NYK, ENCFF811WQQ	307540	ENCODE Processing Pipeline	27f4568230f4e95c89aa289b352058cd		https://www.encodeproject.org/files/ENCFF566FVB/@@download/ENCFF566FVB.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF963GDB	bed narrowPeak	optimal idr thresholded peaks	ENCSR205FOW	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				ATF3-human	DNA					False	2016-03-31	ENCODE				1, 2							ENCFF001TDO, ENCFF128ZQH, ENCFF315FCJ, ENCFF853ZNE	270502	ENCODE Processing Pipeline	a64761d8974058ef1c282dfb231db1a5		https://www.encodeproject.org/files/ENCFF963GDB/@@download/ENCFF963GDB.bed.gz	hg19			archived	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF971QHN	bed narrowPeak	optimal idr thresholded peaks	ENCSR297GII	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				HNF4G-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF003GWJ, ENCFF129GGF, ENCFF651MBI	384070	ENCODE Processing Pipeline	b2dc6635b5a638f683ecc6f1d4144373		https://www.encodeproject.org/files/ENCFF971QHN/@@download/ENCFF971QHN.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF862NGG	bed narrowPeak	optimal idr thresholded peaks	ENCSR297GII	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				HNF4G-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF741KXN, ENCFF765FDF, ENCFF955CAT	332417	ENCODE Processing Pipeline	d7918ac7abf430b1367f587b576211a2		https://www.encodeproject.org/files/ENCFF862NGG/@@download/ENCFF862NGG.bed.gz	hg19			archived	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF126PNX	bed narrowPeak	optimal idr thresholded peaks	ENCSR324RCI	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				FOXA1-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF363RKC, ENCFF971SJB, ENCFF972ILN	336869	ENCODE Processing Pipeline	6d717898050610295a501877bd125954		https://www.encodeproject.org/files/ENCFF126PNX/@@download/ENCFF126PNX.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF693PZH	bed narrowPeak	optimal idr thresholded peaks	ENCSR619IUE	ChIP-seq	CL:0000103	bipolar neuron	in vitro differentiated cells	Homo sapiens	doxycycline hyclate	0.5 μg/mL	4 day	CTCF-human	DNA					False	2016-10-27	ENCODE				1, 2							ENCFF001TDO, ENCFF263PBF, ENCFF682TFX, ENCFF721XMZ	956798	ENCODE Processing Pipeline	204ad61bcdc9e26628e1deafb30a2fed		https://www.encodeproject.org/files/ENCFF693PZH/@@download/ENCFF693PZH.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption	biological replicates with identical biosample, NTR biosample		
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	
ENCFF017YUI	bed narrowPeak	optimal idr thresholded peaks	ENCSR386YIH	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				SP1-human	DNA					False	2018-02-08	ENCODE				1, 2							ENCFF001TDO, ENCFF027RDL, ENCFF084INO, ENCFF571PKW	1086792	ENCODE Processing Pipeline	6d927fefe02424dcffe488b1873c853e		https://www.encodeproject.org/files/ENCFF017YUI/@@download/ENCFF017YUI.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample, experiment not submitted to GEO		
ENCFF002CTK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVE	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				TCF7L2-human	DNA		see document	see document		False	2012-05-14	ENCODE												437958	ENCODE Consortium Analysis Working Group	b6b4a4d0d1cbe37588a4d53cf3d70440		https://www.encodeproject.org/files/ENCFF002CTK/@@download/ENCFF002CTK.bed.gz	hg19			released	low read length, inconsistent platforms	missing derived_from, biological replicates with identical biosample		
ENCFF274TYW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BVO	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2012-09-10	ENCODE				1, 2							ENCFF001TDO, ENCFF242EJE, ENCFF289KHP, ENCFF772MXQ	164639	ENCODE Processing Pipeline	a0226d35a19d707f0c8598c8549dc61d		https://www.encodeproject.org/files/ENCFF274TYW/@@download/ENCFF274TYW.bed.gz	hg19			released	low read depth	biological replicates with identical biosample		
ENCFF201MOM	bed narrowPeak	optimal idr thresholded peaks	ENCSR445QRF	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				HNF4A-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF088ETE, ENCFF618OVE, ENCFF901DDA	1163150	ENCODE Processing Pipeline	a2e668e5d2b1eee01a1e10e713d8b6b6		https://www.encodeproject.org/files/ENCFF201MOM/@@download/ENCFF201MOM.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF831MEQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR290ZOS	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				EGR1-human	DNA					False	2018-02-08	ENCODE				1, 2							ENCFF001TDO, ENCFF145YNF, ENCFF618LWB, ENCFF963HHX	154457	ENCODE Processing Pipeline	a9c85d1261d6986e36bde2bff9d695fc		https://www.encodeproject.org/files/ENCFF831MEQ/@@download/ENCFF831MEQ.bed.gz	hg19			released	low read depth, antibody characterized with exemption	biological replicates with identical biosample, experiment not submitted to GEO		
ENCFF288UUU	bed narrowPeak	optimal idr thresholded peaks	ENCSR636YLV	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				MAZ-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF072HSB, ENCFF472YFZ, ENCFF542JSY	73312	ENCODE Processing Pipeline	45aa3b730ac79670ffb336af6ab340d4		https://www.encodeproject.org/files/ENCFF288UUU/@@download/ENCFF288UUU.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF129ABL	bed narrowPeak	optimal idr thresholded peaks	ENCSR636YLV	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				MAZ-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF631NAL, ENCFF747WRX, ENCFF907QKO	62227	ENCODE Processing Pipeline	f874d13bbe17428cc2342b49bb7f77b9		https://www.encodeproject.org/files/ENCFF129ABL/@@download/ENCFF129ABL.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF840NOO	bed narrowPeak	optimal idr thresholded peaks	ENCSR847DIT	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				MAX-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF151FBW, ENCFF810FLM, ENCFF981QWW	547666	ENCODE Processing Pipeline	9e7471dd4ce8fad320cb14b095049694		https://www.encodeproject.org/files/ENCFF840NOO/@@download/ENCFF840NOO.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF258PIW	bed narrowPeak	optimal idr thresholded peaks	ENCSR038GMB	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				GABPA-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF045GWC, ENCFF556UZM, ENCFF634EKL	369257	ENCODE Processing Pipeline	95e75578d1c167b5e7e081f192c5011b		https://www.encodeproject.org/files/ENCFF258PIW/@@download/ENCFF258PIW.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF688LUP	bed narrowPeak	optimal idr thresholded peaks	ENCSR516HUP	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				ZBTB33-human	DNA					False	2016-09-19	ENCODE				1, 2							ENCFF001TDO, ENCFF080EAQ, ENCFF373SRH, ENCFF582WLM	345115	ENCODE Processing Pipeline	6261d9022afb9f39ecff325f89aa7120		https://www.encodeproject.org/files/ENCFF688LUP/@@download/ENCFF688LUP.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF786DKS	bed narrowPeak	optimal idr thresholded peaks	ENCSR310NYI	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				FOXA2-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF047WBC, ENCFF125PLO, ENCFF474ZPF	417839	ENCODE Processing Pipeline	cea1a5e5ed8c5d53eed103f964f51b28		https://www.encodeproject.org/files/ENCFF786DKS/@@download/ENCFF786DKS.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF166FRO	bed narrowPeak	optimal idr thresholded peaks	ENCSR746XEG	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFXL1-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF044ASF, ENCFF635ZSK, ENCFF763SSU	111900	ENCODE Processing Pipeline	ecdcd45712ada557b780b8561c0c71c2		https://www.encodeproject.org/files/ENCFF166FRO/@@download/ENCFF166FRO.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption			
ENCFF002CWH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2012-05-14	ENCODE												521895	ENCODE Consortium Analysis Working Group	2afcc7647009b98a31ef5cc965732f63		https://www.encodeproject.org/files/ENCFF002CWH/@@download/ENCFF002CWH.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF465JKF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF019DFB, ENCFF033VDX, ENCFF165VLE	538620	ENCODE Processing Pipeline	146303efe433182be7daba2298a9ffda		https://www.encodeproject.org/files/ENCFF465JKF/@@download/ENCFF465JKF.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF522JRK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFR	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZC3H11A-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF305IJI, ENCFF547MRJ, ENCFF726OZS	51017	ENCODE Processing Pipeline	81ec05387a90d3fd3d085fdfd8e8c470		https://www.encodeproject.org/files/ENCFF522JRK/@@download/ENCFF522JRK.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF809OOE	bed narrowPeak	optimal idr thresholded peaks	ENCSR441VHN	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				IKZF1-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF413ANK, ENCFF526LHJ, ENCFF963HCJ	1251501	ENCODE Processing Pipeline	9dc6f420639e0a265f3f179b6b42713a		https://www.encodeproject.org/files/ENCFF809OOE/@@download/ENCFF809OOE.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF633IHZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR036EGV	ChIP-seq	CL:1001606	foreskin keratinocyte	primary cell	Homo sapiens	calcium	1.2 mM	2.5 day	CTCF-human	DNA				formaldehyde	False	2017-10-10	GGR				1, 2							ENCFF001TDO, ENCFF007ACV, ENCFF239HMM, ENCFF244MXM	1060208	ENCODE Processing Pipeline	5075db80d4e5d5c13519931167353be7		https://www.encodeproject.org/files/ENCFF633IHZ/@@download/ENCFF633IHZ.bed.gz	hg19			released		experiment not submitted to GEO		
ENCFF002COG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYE	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2012-05-14	ENCODE												604014	ENCODE Consortium Analysis Working Group	cbd0c10b980cd8865823f5b8742e1b4c		https://www.encodeproject.org/files/ENCFF002COG/@@download/ENCFF002COG.bed.gz	hg19			archived	low read length, inconsistent platforms, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF958VNQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYE	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF067TKW, ENCFF425OPL, ENCFF907WEZ	448758	ENCODE Processing Pipeline	f59819bf62d5b8f038e3dcc9d07920fb		https://www.encodeproject.org/files/ENCFF958VNQ/@@download/ENCFF958VNQ.bed.gz	hg19			released	low read length, inconsistent platforms, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF462CPT	bed narrowPeak	optimal idr thresholded peaks	ENCSR492LTS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BCLAF1-human	DNA					False	2017-02-02	ENCODE				1, 2							ENCFF001TDO, ENCFF027UPQ, ENCFF202AHW, ENCFF662CIT	61355	ENCODE Processing Pipeline	e5f4357bf52033266e56f7a93118ed40		https://www.encodeproject.org/files/ENCFF462CPT/@@download/ENCFF462CPT.bed.gz	hg19			released	borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF207YNL	bed narrowPeak	optimal idr thresholded peaks	ENCSR735KEY	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				FOXA1-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF712EUK, ENCFF841RCY, ENCFF924RTU	295835	ENCODE Processing Pipeline	d9ed0e1afecb61a6948b1a641fbfa1b9		https://www.encodeproject.org/files/ENCFF207YNL/@@download/ENCFF207YNL.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF712AXK	bed narrowPeak	optimal idr thresholded peaks	ENCSR707QWA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NR2F6-human	DNA					False	2016-06-28	ENCODE				1, 2							ENCFF001TDO, ENCFF106WRW, ENCFF134OVY, ENCFF604XWK	402996	ENCODE Processing Pipeline	d4ef75a204c84efaad5df40feb9c957b		https://www.encodeproject.org/files/ENCFF712AXK/@@download/ENCFF712AXK.bed.gz	hg19			released	borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF511QHY	bed narrowPeak	optimal idr thresholded peaks	ENCSR102KIN	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZMYM3-human	DNA					False	2016-10-12	ENCODE				1, 2							ENCFF001TDO, ENCFF204QNV, ENCFF438LLN, ENCFF925VOV	668402	ENCODE Processing Pipeline	2a540d117bdccfec94aa0f5dc33dc677		https://www.encodeproject.org/files/ENCFF511QHY/@@download/ENCFF511QHY.bed.gz	hg19			released	antibody characterized with exemption, mixed read lengths			
ENCFF813VLK	bed narrowPeak	optimal idr thresholded peaks	ENCSR090ZDO	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				SUZ12-human	DNA					False	2016-11-18	ENCODE				1, 2							ENCFF001TDO, ENCFF230ONV, ENCFF599ICL, ENCFF761HEQ	20025	ENCODE Processing Pipeline	056a79d036d303f6d0cda17c93bb1e4f		https://www.encodeproject.org/files/ENCFF813VLK/@@download/ENCFF813VLK.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF248VHN	bed narrowPeak	optimal idr thresholded peaks	ENCSR302AWT	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				FOXK2-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF037YFB, ENCFF203SUN, ENCFF732HYH	358492	ENCODE Processing Pipeline	6617b946d9b9a9e353cf71f681323126		https://www.encodeproject.org/files/ENCFF248VHN/@@download/ENCFF248VHN.bed.gz	hg19			released	low read depth			
ENCFF002CQP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBQ	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				BACH1-human	DNA		see document	see document		False	2012-05-14	ENCODE												295772	ENCODE Consortium Analysis Working Group	c57049823cef0ab9af77fae6384cf1bd		https://www.encodeproject.org/files/ENCFF002CQP/@@download/ENCFF002CQP.bed.gz	hg19			archived	low read length, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF977MDK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBQ	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				BACH1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF415TPT, ENCFF502ZML, ENCFF627CTC	231168	ENCODE Processing Pipeline	f0d5e3cdd99adc2c94a24de809558a54		https://www.encodeproject.org/files/ENCFF977MDK/@@download/ENCFF977MDK.bed.gz	hg19			released	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF253NXR	bed narrowPeak	optimal idr thresholded peaks	ENCSR175SZH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZSCAN29-human	DNA					False	2016-10-31	ENCODE				1, 2							ENCFF001TDO, ENCFF118YQO, ENCFF483NEI, ENCFF788QDP	323129	ENCODE Processing Pipeline	ce16e91b56c848b604565d6e0c378f09		https://www.encodeproject.org/files/ENCFF253NXR/@@download/ENCFF253NXR.bed.gz	hg19			released	low read depth			
ENCFF956LMS	bed narrowPeak	optimal idr thresholded peaks	ENCSR757EMK	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				SUZ12-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF050ZNZ, ENCFF497GTZ, ENCFF706VXW	121082	ENCODE Processing Pipeline	6ca14a532bb29b2041757fdb0d29a730		https://www.encodeproject.org/files/ENCFF956LMS/@@download/ENCFF956LMS.bed.gz	hg19			released				
ENCFF632MBO	bed narrowPeak	optimal idr thresholded peaks	ENCSR813DCK	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SMAD1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF057LDF, ENCFF562WIC, ENCFF916SIZ	208040	ENCODE Processing Pipeline	77c0993b8896711fa45c03a67e592c7b		https://www.encodeproject.org/files/ENCFF632MBO/@@download/ENCFF632MBO.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF103OOV	bed narrowPeak	optimal idr thresholded peaks	ENCSR072PWP	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZNF24-human	DNA					False	2017-06-26	ENCODE				1, 2							ENCFF001TDO, ENCFF593RSQ, ENCFF882PND, ENCFF956UUX	335127	ENCODE Processing Pipeline	dc50267f97e94c42ba040408571a95a8		https://www.encodeproject.org/files/ENCFF103OOV/@@download/ENCFF103OOV.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF426DUB	bed narrowPeak	optimal idr thresholded peaks	ENCSR795IYP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				JUNB-human	DNA					False	2016-03-02	ENCODE				1, 2							ENCFF001TDO, ENCFF127XOZ, ENCFF325KGM, ENCFF997SXB	95173	ENCODE Processing Pipeline	9f0888598e4c0a94620276153bf94d46		https://www.encodeproject.org/files/ENCFF426DUB/@@download/ENCFF426DUB.bed.gz	hg19			released	borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF920LEU	bed narrowPeak	optimal idr thresholded peaks	ENCSR799GOY	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				YBX1-human	DNA					False	2016-09-01	ENCODE				1, 2							ENCFF001TDO, ENCFF527RBD, ENCFF674AYU, ENCFF716TQR	88695	ENCODE Processing Pipeline	3294d59a75115ea2e7bba0de196a9231		https://www.encodeproject.org/files/ENCFF920LEU/@@download/ENCFF920LEU.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF431CEH	bed narrowPeak	optimal idr thresholded peaks	ENCSR264RJX	ChIP-seq	EFO:0007950	GM23338	induced pluripotent stem cell line	Homo sapiens				POU5F1-human	DNA					False	2016-06-16	ENCODE				1, 2							ENCFF001TDO, ENCFF142NKY, ENCFF214FTU, ENCFF916HRC	139075	ENCODE Processing Pipeline	28fb1d0f3e4fa242a8e3be631f12ab66		https://www.encodeproject.org/files/ENCFF431CEH/@@download/ENCFF431CEH.bed.gz	hg19			released	low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF046WLI	bed narrowPeak	optimal idr thresholded peaks	ENCSR264RJX	ChIP-seq	EFO:0007950	GM23338	induced pluripotent stem cell line	Homo sapiens				POU5F1-human	DNA					False	2016-06-16	ENCODE				1, 2							ENCFF001TDO, ENCFF132GYY, ENCFF598PVZ, ENCFF969HTA	118721	ENCODE Processing Pipeline	f6ed66919a91beb16dcee1ffdd1e497e		https://www.encodeproject.org/files/ENCFF046WLI/@@download/ENCFF046WLI.bed.gz	hg19			archived	low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF986MHU	bed narrowPeak	optimal idr thresholded peaks	ENCSR085DDI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFXL1-human	DNA					False	2016-12-05	ENCODE				1, 2							ENCFF001TDO, ENCFF297LLA, ENCFF666TVL, ENCFF804ZDO	116563	ENCODE Processing Pipeline	a5428ff5fcb7004b76804e57d613d5fd		https://www.encodeproject.org/files/ENCFF986MHU/@@download/ENCFF986MHU.bed.gz	hg19			released				
ENCFF839EPV	bed narrowPeak	optimal idr thresholded peaks	ENCSR417DKD	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				NFXL1-human	DNA					False	2017-06-07	ENCODE				1, 2							ENCFF001TDO, ENCFF447SAN, ENCFF842DAK, ENCFF875DOP	44419	ENCODE Processing Pipeline	2ab64fcc59001a92495fc446b93c8748		https://www.encodeproject.org/files/ENCFF839EPV/@@download/ENCFF839EPV.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF760HUV	bed narrowPeak	optimal idr thresholded peaks	ENCSR932ZMX	ChIP-seq	EFO:0007950	GM23338	induced pluripotent stem cell line	Homo sapiens				CTCF-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF346PQE, ENCFF414BJO, ENCFF661MCK	1427699	ENCODE Processing Pipeline	4afa784408ac7c6d1be29f75f613ebeb		https://www.encodeproject.org/files/ENCFF760HUV/@@download/ENCFF760HUV.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, antibody characterized with exemption	NTR biosample		
ENCFF241JKV	bed narrowPeak	optimal idr thresholded peaks	ENCSR303GFI	ChIP-seq	EFO:0002323	RWPE1	cell line	Homo sapiens				CTCF-human	DNA					False	2017-07-21	ENCODE				1, 2							ENCFF001TDO, ENCFF281EIU, ENCFF605AVV, ENCFF677QYW	930122	ENCODE Processing Pipeline	0a7755c1ba62ad85da95d6f5e7f2a2ad		https://www.encodeproject.org/files/ENCFF241JKV/@@download/ENCFF241JKV.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF459YEI	bed narrowPeak	optimal idr thresholded peaks	ENCSR817HTJ	ChIP-seq	CL:1001606	foreskin keratinocyte	primary cell	Homo sapiens				CTCF-human	DNA				formaldehyde	False	2017-10-10	GGR				1, 2							ENCFF001TDO, ENCFF379YTS, ENCFF673WMU, ENCFF774PLL	1223933	ENCODE Processing Pipeline	f817005605e7a1474a2e57fdfc3582b4		https://www.encodeproject.org/files/ENCFF459YEI/@@download/ENCFF459YEI.bed.gz	hg19			released		experiment not submitted to GEO		
ENCFF968EAL	bed narrowPeak	optimal idr thresholded peaks	ENCSR353HEP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TARDBP-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF027BJC, ENCFF032HCI, ENCFF139HGF	136479	ENCODE Processing Pipeline	bba8e09d361ca0cf21a60e83afff4fcd		https://www.encodeproject.org/files/ENCFF968EAL/@@download/ENCFF968EAL.bed.gz	hg19			released	low read depth			
ENCFF253FON	bed narrowPeak	optimal idr thresholded peaks	ENCSR286PCG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZBED1-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF052CCG, ENCFF259MRC, ENCFF648RRL	104275	ENCODE Processing Pipeline	5fdeef786b8622e06a21d2c820b3da97		https://www.encodeproject.org/files/ENCFF253FON/@@download/ENCFF253FON.bed.gz	hg19			released				
ENCFF374HJR	bed narrowPeak	optimal idr thresholded peaks	ENCSR016UEH	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TARDBP-human	DNA		see document	see document		False	2016-11-08	ENCODE				1, 2							ENCFF001TDO, ENCFF025MTA, ENCFF168RYI, ENCFF500LLP	117764	ENCODE Processing Pipeline	aa3bef7e4e1504bc5d0fe6d1cb3b61b9		https://www.encodeproject.org/files/ENCFF374HJR/@@download/ENCFF374HJR.bed.gz	hg19			released	borderline replicate concordance, low read depth			
ENCFF662MVX	bed narrowPeak	optimal idr thresholded peaks	ENCSR411UYA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MTA2-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF084ILX, ENCFF605LJE, ENCFF850ENR	384677	ENCODE Processing Pipeline	21d4fc2074ca86610ddb256b957f4bfa		https://www.encodeproject.org/files/ENCFF662MVX/@@download/ENCFF662MVX.bed.gz	hg19			released				
ENCFF901JRM	bed narrowPeak	optimal idr thresholded peaks	ENCSR736ZKL	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				eGFP-ZNF148-human	DNA				formaldehyde	False	2017-02-21	ENCODE				1, 2							ENCFF001TDO, ENCFF248EEY, ENCFF462BHV, ENCFF969JFO	68814	ENCODE Processing Pipeline	f12ce089c0b22e41abf68af12c139976		https://www.encodeproject.org/files/ENCFF901JRM/@@download/ENCFF901JRM.bed.gz	hg19			released	missing genetic modification characterization			missing control alignments
ENCFF095TYO	bed narrowPeak	optimal idr thresholded peaks	ENCSR382PVA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				GTF2F1-human	DNA			SDS	formaldehyde	False	2017-02-27	ENCODE				1, 2							ENCFF001TDO, ENCFF033KIA, ENCFF266MOP, ENCFF366ELK	110208	ENCODE Processing Pipeline	460e9f143793618480cb42863a585128		https://www.encodeproject.org/files/ENCFF095TYO/@@download/ENCFF095TYO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth			
ENCFF193FZK	bed narrowPeak	optimal idr thresholded peaks	ENCSR337NQP	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ESRRA-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF111XHJ, ENCFF472FKC, ENCFF484BXC	37772	ENCODE Processing Pipeline	6d8a2ae1b22bb8666ac032eee0fec1c5		https://www.encodeproject.org/files/ENCFF193FZK/@@download/ENCFF193FZK.bed.gz	hg19			released	borderline replicate concordance	experiment not submitted to GEO	partially characterized antibody	
ENCFF788CHY	bed narrowPeak	optimal idr thresholded peaks	ENCSR856JJB	ChIP-seq	EFO:0007610	RWPE2	cell line	Homo sapiens				CTCF-human	DNA					False	2017-07-21	ENCODE				1, 2							ENCFF001TDO, ENCFF105NHW, ENCFF282SYC, ENCFF828HUH	1817661	ENCODE Processing Pipeline	250df0fa4ddeb6f03963a6a3429bacff		https://www.encodeproject.org/files/ENCFF788CHY/@@download/ENCFF788CHY.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity	experiment not submitted to GEO	poor library complexity, severe bottlenecking	
ENCFF398TWC	bed narrowPeak	optimal idr thresholded peaks	ENCSR792IYC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BCLAF1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF002NNQ, ENCFF039VDD, ENCFF519QDT	39607	ENCODE Processing Pipeline	95c94c1100d8e4fdb273a6e4dda01157		https://www.encodeproject.org/files/ENCFF398TWC/@@download/ENCFF398TWC.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance	experiment not submitted to GEO	partially characterized antibody	
ENCFF947SUP	bed narrowPeak	optimal idr thresholded peaks	ENCSR429CLV	ChIP-seq	EFO:0002824	HCT116	cell line	Homo sapiens				EZH2phosphoT487-human	DNA					False	2018-02-06	ENCODE				1, 2							ENCFF001TDO, ENCFF692CDD, ENCFF734XYJ, ENCFF941MND	9304	ENCODE Processing Pipeline	6f5ef776604ae4ef6e6428c16abcc69a		https://www.encodeproject.org/files/ENCFF947SUP/@@download/ENCFF947SUP.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF381SBC	bed narrowPeak	optimal idr thresholded peaks	ENCSR784VIQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NR2C1-human	DNA					False	2017-06-07	ENCODE				1, 2							ENCFF001TDO, ENCFF041WNR, ENCFF119UKJ, ENCFF685WLQ	198894	ENCODE Processing Pipeline	4eae90be6d7c11e1201772554bef3773		https://www.encodeproject.org/files/ENCFF381SBC/@@download/ENCFF381SBC.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption			
ENCFF490VVG	bed narrowPeak	optimal idr thresholded peaks	ENCSR893WSB	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HDAC2-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF368EUJ, ENCFF380RMA, ENCFF399PWD	687231	ENCODE Processing Pipeline	fca556d6c89db48dae7c6c046425eeb5		https://www.encodeproject.org/files/ENCFF490VVG/@@download/ENCFF490VVG.bed.gz	hg19			released	borderline replicate concordance	experiment not submitted to GEO	partially characterized antibody	
ENCFF569XCA	bed narrowPeak	optimal idr thresholded peaks	ENCSR476BQA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NONO-human	DNA					False	2017-02-01	ENCODE				1, 2							ENCFF001TDO, ENCFF234DZJ, ENCFF437VMK, ENCFF875EQQ	43938	ENCODE Processing Pipeline	fa06ed25bf1a2fc1f65dfe212ada330b		https://www.encodeproject.org/files/ENCFF569XCA/@@download/ENCFF569XCA.bed.gz	hg19			released	borderline replicate concordance			
ENCFF038MZK	bed narrowPeak	optimal idr thresholded peaks	ENCSR562NOP	ChIP-seq	EFO:0002167	DOHH2	cell line	Homo sapiens				EZH2phosphoT487-human	DNA		see document	see document		False	2017-01-31	ENCODE				1, 2							ENCFF001TDO, ENCFF539MLU, ENCFF669EAC, ENCFF945BEK	78237	ENCODE Processing Pipeline	0bafc2c533ebff4696c7daaefd3bf334		https://www.encodeproject.org/files/ENCFF038MZK/@@download/ENCFF038MZK.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, antibody characterized with exemption, mixed read lengths	NTR biosample		
ENCFF445LQN	bed narrowPeak	optimal idr thresholded peaks	ENCSR620DUQ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CREB1-human	DNA					False	2017-09-28	ENCODE				1, 2							ENCFF001TDO, ENCFF040JIX, ENCFF783CTL, ENCFF790WFD	851936	ENCODE Processing Pipeline	70561ac7f1ddb5a4e1c45eb02ab2b02c		https://www.encodeproject.org/files/ENCFF445LQN/@@download/ENCFF445LQN.bed.gz	hg19			released				
ENCFF776YPS	bed narrowPeak	optimal idr thresholded peaks	ENCSR886RYH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NONO-human	DNA					False	2017-01-31	ENCODE				3, 4							ENCFF001TDO, ENCFF324CAZ, ENCFF433ZFX, ENCFF784OAB	232581	ENCODE Processing Pipeline	5c0614ca3f5ea89ffbd81ad107a5c28e		https://www.encodeproject.org/files/ENCFF776YPS/@@download/ENCFF776YPS.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF842WEF	bed narrowPeak	optimal idr thresholded peaks	ENCSR027UFT	ChIP-seq	EFO:0006365	C4-2B	cell line	Homo sapiens				ZFX-human	DNA					False	2017-05-18	ENCODE				1, 2							ENCFF001TDO, ENCFF647SSO, ENCFF826ULZ, ENCFF998YLT	347370	ENCODE Processing Pipeline	6f271660d54a0c592fbb46ce8ac25719		https://www.encodeproject.org/files/ENCFF842WEF/@@download/ENCFF842WEF.bed.gz	hg19			released		NTR biosample		
ENCFF698WAX	bed narrowPeak	optimal idr thresholded peaks	ENCSR196HOM	ChIP-seq	CL:0002231	epithelial cell of prostate	primary cell	Homo sapiens				CTCF-human	DNA					False	2017-06-23	ENCODE				1, 2							ENCFF001TDO, ENCFF276RMO, ENCFF344AQO, ENCFF759LYG	1874386	ENCODE Processing Pipeline	91702d6a98f8d9cd05674e5be55bb360		https://www.encodeproject.org/files/ENCFF698WAX/@@download/ENCFF698WAX.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption			
ENCFF259XYR	bed narrowPeak	optimal idr thresholded peaks	ENCSR847XGE	ChIP-seq	EFO:0002095	22Rv1	cell line	Homo sapiens	17β-hydroxy-5α-androstan-3-one	10 nM	4 hour	CTCF-human	DNA					False	2017-06-29	ENCODE				1, 2							ENCFF001TDO, ENCFF011GSD, ENCFF166YLC, ENCFF465IOZ	1551773	ENCODE Processing Pipeline	02a67a4ed01b96ee32b7c7c06a2bb4cb		https://www.encodeproject.org/files/ENCFF259XYR/@@download/ENCFF259XYR.bed.gz	hg19			released	mild to moderate bottlenecking	NTR biosample		
ENCFF052YIL	bed narrowPeak	optimal idr thresholded peaks	ENCSR015TKV	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				BCLAF1-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF593TJL, ENCFF624REB, ENCFF650KWX	5625	ENCODE Processing Pipeline	d302d6e124651bc641b05621e8669fe0		https://www.encodeproject.org/files/ENCFF052YIL/@@download/ENCFF052YIL.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF446FHX	bed narrowPeak	optimal idr thresholded peaks	ENCSR248IMH	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				NFRKB-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF610HTV, ENCFF887ZYJ, ENCFF924OFW	27172	ENCODE Processing Pipeline	662ff52d399651dc17f01ed9a22ef122		https://www.encodeproject.org/files/ENCFF446FHX/@@download/ENCFF446FHX.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF250ZAH	bed narrowPeak	optimal idr thresholded peaks	ENCSR812FNU	ChIP-seq	CL:1001606	foreskin keratinocyte	primary cell	Homo sapiens	calcium	1.2 mM	5.5 day	CTCF-human	DNA				formaldehyde	False	2017-10-10	GGR				1, 2							ENCFF001TDO, ENCFF128OKK, ENCFF562OUS, ENCFF956IFC	1009516	ENCODE Processing Pipeline	8c4b57e46695bb74b34ca789b2be01ad		https://www.encodeproject.org/files/ENCFF250ZAH/@@download/ENCFF250ZAH.bed.gz	hg19			released		experiment not submitted to GEO		
ENCFF027CYL	bed narrowPeak	optimal idr thresholded peaks	ENCSR460XGV	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MNT-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF600NIF, ENCFF780FQB, ENCFF978HRR	23359	ENCODE Processing Pipeline	16be5a6879f034e9b5c4b6d81d2d3fdc		https://www.encodeproject.org/files/ENCFF027CYL/@@download/ENCFF027CYL.bed.gz	hg19			released				
ENCFF769GYG	bed narrowPeak	optimal idr thresholded peaks	ENCSR807BGP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MTA1-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF253PLF, ENCFF387NDE, ENCFF658ZHZ	334404	ENCODE Processing Pipeline	9721f8e11cc0a98b2e92a7ee4f682542		https://www.encodeproject.org/files/ENCFF769GYG/@@download/ENCFF769GYG.bed.gz	hg19			released	borderline replicate concordance			
ENCFF443EYO	bed narrowPeak	optimal idr thresholded peaks	ENCSR362NWP	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZNF24-human	DNA					False	2017-06-26	ENCODE				1, 2							ENCFF001TDO, ENCFF395YWQ, ENCFF859ZGV, ENCFF960SGY	147195	ENCODE Processing Pipeline	7f5a9423cdb84a36e4eb1a9e4d82cc96		https://www.encodeproject.org/files/ENCFF443EYO/@@download/ENCFF443EYO.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF566YUW	bed narrowPeak	optimal idr thresholded peaks	ENCSR173ZVL	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZNF592-human	DNA					False	2017-06-26	ENCODE				1, 2							ENCFF001TDO, ENCFF569JWR, ENCFF629PYS, ENCFF886RMX	226453	ENCODE Processing Pipeline	e42b637c8a6e8fa11ce0322f1525c6d4		https://www.encodeproject.org/files/ENCFF566YUW/@@download/ENCFF566YUW.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF445OFX	bed narrowPeak	optimal idr thresholded peaks	ENCSR246MLJ	ChIP-seq	EFO:0002095	22Rv1	cell line	Homo sapiens				ZFX-human	DNA					False	2017-06-15	ENCODE				1, 2							ENCFF001TDO, ENCFF413CDN, ENCFF865UXS, ENCFF881NRM	7060	ENCODE Processing Pipeline	ab0ec33cf8865cad353c7eac9c884812		https://www.encodeproject.org/files/ENCFF445OFX/@@download/ENCFF445OFX.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption	NTR biosample		
ENCFF763GJP	bed narrowPeak	optimal idr thresholded peaks	ENCSR730TBC	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MNT-human	DNA					False	2017-06-07	ENCODE				1, 2							ENCFF001TDO, ENCFF368MWT, ENCFF617PCO, ENCFF641DSK	217965	ENCODE Processing Pipeline	0416804df0cf36ce6c564ea3183bee52		https://www.encodeproject.org/files/ENCFF763GJP/@@download/ENCFF763GJP.bed.gz	hg19			released				
ENCFF017LZE	bed narrowPeak	optimal idr thresholded peaks	ENCSR725VFL	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TCF12-human	DNA					False	2017-06-07	ENCODE				1, 2							ENCFF001TDO, ENCFF531FOV, ENCFF595TGO, ENCFF601WVR	290462	ENCODE Processing Pipeline	67d4968a8aa146ff684f8bb6aabb0364		https://www.encodeproject.org/files/ENCFF017LZE/@@download/ENCFF017LZE.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption			
ENCFF802XZN	bed narrowPeak	optimal idr thresholded peaks	ENCSR608HVP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-KLF13-human	DNA					False	2016-03-02	ENCODE				1, 2							ENCFF001TDO, ENCFF119DBB, ENCFF163SYH, ENCFF367KYN	180679	ENCODE Processing Pipeline	c2b97dbdcdb1a3eb640515e00cd7a237		https://www.encodeproject.org/files/ENCFF802XZN/@@download/ENCFF802XZN.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, missing genetic modification characterization			
ENCFF155SPQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR315NAC	ChIP-seq	EFO:0002071	LNCAP	cell line	Homo sapiens				CTCF-human	DNA					False	2017-06-29	ENCODE				1, 2							ENCFF001TDO, ENCFF263EYR, ENCFF930VYW, ENCFF977TIL	966701	ENCODE Processing Pipeline	9e3c6202b70ffd4857cfa6a4429b30c2		https://www.encodeproject.org/files/ENCFF155SPQ/@@download/ENCFF155SPQ.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF144BSH	bed narrowPeak	optimal idr thresholded peaks	ENCSR503GVO	ChIP-seq	EFO:0002824	HCT116	cell line	Homo sapiens				ZFX-human	DNA					False	2017-09-07	ENCODE				1, 2							ENCFF001TDO, ENCFF437EHR, ENCFF610MUA, ENCFF939NVJ	446793	ENCODE Processing Pipeline	136660c4dfc08cf2e1a901894c44e523		https://www.encodeproject.org/files/ENCFF144BSH/@@download/ENCFF144BSH.bed.gz	hg19			released		NTR biosample		
ENCFF534CKB	bed narrowPeak	optimal idr thresholded peaks	ENCSR839XZU	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CREM-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF263KGZ, ENCFF510TYC, ENCFF874IMP	555303	ENCODE Processing Pipeline	9bde60dc90e039a208a7b9b7abedd50c		https://www.encodeproject.org/files/ENCFF534CKB/@@download/ENCFF534CKB.bed.gz	hg19			released	low read depth, antibody characterized with exemption			
ENCFF305ICK	bed narrowPeak	optimal idr thresholded peaks	ENCSR501DKS	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TCF7-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF508MRO, ENCFF925ZGX, ENCFF988AWI	177224	ENCODE Processing Pipeline	a4d821726cb81b6e654150bb39ba9b05		https://www.encodeproject.org/files/ENCFF305ICK/@@download/ENCFF305ICK.bed.gz	hg19			released	borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF606CCB	bed narrowPeak	optimal idr thresholded peaks	ENCSR620VIC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-CEBPG-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF014ZNK, ENCFF593QEG, ENCFF851RZA	580428	ENCODE Processing Pipeline	36b3049693b2c5d3cc2c9991f4dbc99a		https://www.encodeproject.org/files/ENCFF606CCB/@@download/ENCFF606CCB.bed.gz	hg19			released	borderline replicate concordance, missing genetic modification characterization			
ENCFF267FXT	bed narrowPeak	optimal idr thresholded peaks	ENCSR382WLL	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ELK1-human	DNA					False	2016-02-16	ENCODE				1, 3							ENCFF001TDO, ENCFF789XUC, ENCFF856LKK, ENCFF927LSX	149657	ENCODE Processing Pipeline	79a57420a683f66d501e513cb37dfda0		https://www.encodeproject.org/files/ENCFF267FXT/@@download/ENCFF267FXT.bed.gz	hg19			released	borderline replicate concordance	duplicate lane review		
ENCFF617CAZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR047LSJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TAF15-human	DNA			SDS	formaldehyde	False	2017-02-27	ENCODE				1, 2							ENCFF001TDO, ENCFF151HYU, ENCFF690XXK, ENCFF789HHG	14792	ENCODE Processing Pipeline	454b3aaf30cc5d814dc031bb5e8ca333		https://www.encodeproject.org/files/ENCFF617CAZ/@@download/ENCFF617CAZ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity			
ENCFF002CTQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVG	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2011-10-29	ENCODE												2349	ENCODE Consortium Analysis Working Group	e6be10ccea019d58d0316cc3e758334e		https://www.encodeproject.org/files/ENCFF002CTQ/@@download/ENCFF002CTQ.bed.gz	hg19			released	low read length, inconsistent platforms, mixed read lengths	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF973OME	bed narrowPeak	optimal idr thresholded peaks	ENCSR979QYJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MNT-human	DNA					False	2017-01-27	ENCODE				1, 2							ENCFF001TDO, ENCFF215LBC, ENCFF513RYM, ENCFF671OVE	404380	ENCODE Processing Pipeline	19ef8e287c2b6736403247c2b5842fef		https://www.encodeproject.org/files/ENCFF973OME/@@download/ENCFF973OME.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF456YII	bed narrowPeak	optimal idr thresholded peaks	ENCSR828NCB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				GATAD2B-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF040LOQ, ENCFF271HBJ, ENCFF855RKW	635087	ENCODE Processing Pipeline	d393dfe420253ec3d9141425df3f5a5b		https://www.encodeproject.org/files/ENCFF456YII/@@download/ENCFF456YII.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity			
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			
ENCFF721LDD	bed narrowPeak	optimal idr thresholded peaks	ENCSR011PEI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-ZNF175-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF195EMK, ENCFF260RNL, ENCFF472SCD	349948	ENCODE Processing Pipeline	ce3af08120a96fe3dd29ae6b4b209bae		https://www.encodeproject.org/files/ENCFF721LDD/@@download/ENCFF721LDD.bed.gz	hg19			released	control low read depth, mild to moderate bottlenecking, low read depth, missing genetic modification characterization			
ENCFF287NXV	bed narrowPeak	optimal idr thresholded peaks	ENCSR894QWM	ChIP-seq	EFO:0005724	MM.1S	cell line	Homo sapiens				EZH2phosphoT487-human	DNA					False	2018-02-06	ENCODE				1, 2							ENCFF001TDO, ENCFF370UMM, ENCFF865JLD, ENCFF989VGU	18478	ENCODE Processing Pipeline	d102157a37eff9c1a140a40c66dfb87e		https://www.encodeproject.org/files/ENCFF287NXV/@@download/ENCFF287NXV.bed.gz	hg19			released	low read length, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF386TTQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR502NRF	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ELF1-human	DNA					False	2017-06-26	ENCODE				1, 2							ENCFF001TDO, ENCFF138HSD, ENCFF491EBX, ENCFF938JGP	383450	ENCODE Processing Pipeline	9d08e04428458646839522bdc4265354		https://www.encodeproject.org/files/ENCFF386TTQ/@@download/ENCFF386TTQ.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF462JFW	bed narrowPeak	optimal idr thresholded peaks	ENCSR706BJO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-ZBTB11-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF162YHD, ENCFF847LNA, ENCFF999XQG	421045	ENCODE Processing Pipeline	cbf4d9f37773b9077321587efc291d1d		https://www.encodeproject.org/files/ENCFF462JFW/@@download/ENCFF462JFW.bed.gz	hg19			released	missing genetic modification characterization			
ENCFF478KCU	bed narrowPeak	optimal idr thresholded peaks	ENCSR096KPA	ChIP-seq	EFO:0005723	GM23248	cell line	Homo sapiens				EZH2phosphoT487-human	DNA					False	2018-03-04	ENCODE				1, 2							ENCFF001TDO, ENCFF253NDQ, ENCFF311GKF, ENCFF980FHO	168481	ENCODE Processing Pipeline	ca933600ea2d3517a032cb0412782c3e		https://www.encodeproject.org/files/ENCFF478KCU/@@download/ENCFF478KCU.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO	insufficient read depth	
ENCFF002CUS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEG	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-10-29	ENCODE												892862	ENCODE Consortium Analysis Working Group	e96e23464661bb743565b9ce1f3bb9d0		https://www.encodeproject.org/files/ENCFF002CUS/@@download/ENCFF002CUS.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF584YYH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEG	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF550URY, ENCFF741VOR, ENCFF770CIC	705911	ENCODE Processing Pipeline	a82ee2006f39ecbc61fc9f369c4f5341		https://www.encodeproject.org/files/ENCFF584YYH/@@download/ENCFF584YYH.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF880SXP	bed narrowPeak	optimal idr thresholded peaks	ENCSR278JQG	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				IKZF1-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF727PSQ, ENCFF835OWQ, ENCFF916ARR	47660	ENCODE Processing Pipeline	5b7572ab56cf4c0cce401f0880eb3529		https://www.encodeproject.org/files/ENCFF880SXP/@@download/ENCFF880SXP.bed.gz	hg19			released	borderline replicate concordance			
ENCFF002DCM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HHN, ENCFF001HHS	826017	ENCODE Consortium Analysis Working Group	a8c651b28667a589dbf0c29f9e45ab01		https://www.encodeproject.org/files/ENCFF002DCM/@@download/ENCFF002DCM.bed.gz	hg19			archived	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth			extremely low read depth
ENCFF473RXY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF303UAB, ENCFF559IXF, ENCFF918HTJ	645089	ENCODE Processing Pipeline	9263eb7386faf2870ea728ae87b40a30		https://www.encodeproject.org/files/ENCFF473RXY/@@download/ENCFF473RXY.bed.gz	hg19			released	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth			extremely low read depth
ENCFF231VAA	bed narrowPeak	optimal idr thresholded peaks	ENCSR389BLX	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				GATAD2B-human	DNA					False	2016-10-26	ENCODE				1, 2							ENCFF001TDO, ENCFF195SFI, ENCFF697TMT, ENCFF938OWG	56375	ENCODE Processing Pipeline	88eb6873f70ac1b132216ad014effc17		https://www.encodeproject.org/files/ENCFF231VAA/@@download/ENCFF231VAA.bed.gz	hg19			released				
ENCFF002CXL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2012-05-14	ENCODE												560754	ENCODE Consortium Analysis Working Group	ec1717748eb321c02c89b809da728501		https://www.encodeproject.org/files/ENCFF002CXL/@@download/ENCFF002CXL.bed.gz	hg19			archived	low read length, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF549TYR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF140XPK, ENCFF379CMJ, ENCFF721DKV	499007	ENCODE Processing Pipeline	5c12903e8565056220d8fa3f42c54529		https://www.encodeproject.org/files/ENCFF549TYR/@@download/ENCFF549TYR.bed.gz	hg19			released	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF966MVC	bed narrowPeak	optimal idr thresholded peaks	ENCSR412CTM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SUZ12-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF009PGQ, ENCFF107SGI, ENCFF341WWD	45116	ENCODE Processing Pipeline	1567fb3dc23551e8036656e989bcb56f		https://www.encodeproject.org/files/ENCFF966MVC/@@download/ENCFF966MVC.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance			
ENCFF333UCS	bed narrowPeak	optimal idr thresholded peaks	ENCSR240XWM	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				LEF1-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF028UBX, ENCFF072ERX, ENCFF461RDS	67533	ENCODE Processing Pipeline	9c024f81116a4662a6b618d79c6b16c0		https://www.encodeproject.org/files/ENCFF333UCS/@@download/ENCFF333UCS.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF518OUJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR591EBL	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				NBN-human	DNA					False	2016-09-20	ENCODE				1, 2							ENCFF001TDO, ENCFF231ULR, ENCFF736SWB, ENCFF934HUV	58866	ENCODE Processing Pipeline	6168710fa83a5c083f8133657ff846a4		https://www.encodeproject.org/files/ENCFF518OUJ/@@download/ENCFF518OUJ.bed.gz	hg19			released	file validation error	mismatched file status		
ENCFF002DAR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DLK	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												775431	ENCODE Consortium Analysis Working Group	94d260bfb6b2aa8ab39d8332381857b5		https://www.encodeproject.org/files/ENCFF002DAR/@@download/ENCFF002DAR.bed.gz	hg19			archived	low read length	missing derived_from	insufficient read depth	control extremely low read depth
ENCFF763AAE	bed narrowPeak	optimal idr thresholded peaks	ENCSR522LDJ	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				HDGF-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF325LIS, ENCFF420XDI, ENCFF948KJG	62705	ENCODE Processing Pipeline	ec725059665594e94aa84a79c6e18af9		https://www.encodeproject.org/files/ENCFF763AAE/@@download/ENCFF763AAE.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption			
ENCFF298VCE	bed narrowPeak	optimal idr thresholded peaks	ENCSR555PBN	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MAFK-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF057RCM, ENCFF215LEX, ENCFF915SCX	229725	ENCODE Processing Pipeline	a49314d3746a847846deb7ec319b9564		https://www.encodeproject.org/files/ENCFF298VCE/@@download/ENCFF298VCE.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity	experiment not submitted to GEO	partially characterized antibody	
ENCFF053TBK	bed narrowPeak	optimal idr thresholded peaks	ENCSR064LJN	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				RFX5-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF417FAK, ENCFF678TZR, ENCFF844VMC	118243	ENCODE Processing Pipeline	e22a0a18cb43373f975e5942d390db9b		https://www.encodeproject.org/files/ENCFF053TBK/@@download/ENCFF053TBK.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption			
ENCFF556DEP	bed narrowPeak	optimal idr thresholded peaks	ENCSR683CSF	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZNF207-human	DNA					False	2016-09-20	ENCODE				1, 2							ENCFF001TDO, ENCFF369GTZ, ENCFF459AGI, ENCFF694FNL	26931	ENCODE Processing Pipeline	c521f53794c533f3c0ed06c7b4434069		https://www.encodeproject.org/files/ENCFF556DEP/@@download/ENCFF556DEP.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF637SBD	bed narrowPeak	optimal idr thresholded peaks	ENCSR103GAK	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				eGFP-ZNF175-human	DNA				formaldehyde	False	2016-10-07	ENCODE				1, 2							ENCFF001TDO, ENCFF035JZF, ENCFF126KMD, ENCFF567MYL	18038	ENCODE Processing Pipeline	666bc52045a14237131db8a8e0a1b7fc		https://www.encodeproject.org/files/ENCFF637SBD/@@download/ENCFF637SBD.bed.gz	hg19			released	borderline replicate concordance, missing genetic modification characterization			missing control alignments
ENCFF229YSW	bed narrowPeak	optimal idr thresholded peaks	ENCSR874AFU	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				IKZF1-human	DNA					False	2016-09-20	ENCODE				1, 2							ENCFF001TDO, ENCFF455HXY, ENCFF492EAL, ENCFF795PEX	1279497	ENCODE Processing Pipeline	82175322dd3d0a9e2c11ada5394bf2a7		https://www.encodeproject.org/files/ENCFF229YSW/@@download/ENCFF229YSW.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF895QLA	bed narrowPeak	optimal idr thresholded peaks	ENCSR137ZMQ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				REST-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF116JZW, ENCFF267RGU, ENCFF876EHZ	767264	ENCODE Processing Pipeline	566a637ff871d08a8eb27aa1153826fb		https://www.encodeproject.org/files/ENCFF895QLA/@@download/ENCFF895QLA.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF658YLW	bed narrowPeak	optimal idr thresholded peaks	ENCSR545FXC	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ATF7-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF302KGG, ENCFF556TCV, ENCFF684VZS	712827	ENCODE Processing Pipeline	e36045cc8769b117f494406dc120ea94		https://www.encodeproject.org/files/ENCFF658YLW/@@download/ENCFF658YLW.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF998YJY	bed narrowPeak	optimal idr thresholded peaks	ENCSR563LLO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				E2F1-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF159RHZ, ENCFF218RJK, ENCFF710KKZ	145663	ENCODE Processing Pipeline	167456f68af8d185c73af8324361f14e		https://www.encodeproject.org/files/ENCFF998YJY/@@download/ENCFF998YJY.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF785ZQF	bed narrowPeak	optimal idr thresholded peaks	ENCSR636EYA	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTBP1-human	DNA					False	2016-04-21	ENCODE				1, 2							ENCFF001TDO, ENCFF890VHF, ENCFF922CFN, ENCFF941VDL	592985	ENCODE Processing Pipeline	643de89c03671376dce833c8c354adf7		https://www.encodeproject.org/files/ENCFF785ZQF/@@download/ENCFF785ZQF.bed.gz	hg19			released				
ENCFF588OLK	bed narrowPeak	optimal idr thresholded peaks	ENCSR780BBJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZZZ3-human	DNA					False	2016-12-05	ENCODE				1, 2							ENCFF001TDO, ENCFF433ANO, ENCFF639RPL, ENCFF975UYT	59489	ENCODE Processing Pipeline	21ad5e41efc93bdc0af0f6d786d80664		https://www.encodeproject.org/files/ENCFF588OLK/@@download/ENCFF588OLK.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, antibody characterized with exemption			
ENCFF237UAN	bed narrowPeak	optimal idr thresholded peaks	ENCSR041AXL	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				RFX1-human	DNA					False	2016-06-23	ENCODE				1, 2							ENCFF001TDO, ENCFF008XTO, ENCFF811RGP, ENCFF830YCS	297362	ENCODE Processing Pipeline	cf2d85601c8811ad39574a73908395c8		https://www.encodeproject.org/files/ENCFF237UAN/@@download/ENCFF237UAN.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF966RPL	bed narrowPeak	optimal idr thresholded peaks	ENCSR293QAR	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MTA2-human	DNA					False	2016-09-20	ENCODE				1, 2							ENCFF001TDO, ENCFF407KWG, ENCFF494SRY, ENCFF593KRH	789765	ENCODE Processing Pipeline	44b35b24f90013b12bb762c2c84bd65c		https://www.encodeproject.org/files/ENCFF966RPL/@@download/ENCFF966RPL.bed.gz	hg19			released	file validation error, mild to moderate bottlenecking, low read depth, moderate library complexity	mismatched file status		
ENCFF012JXJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR636MKU	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BACH1-human	DNA					False	2017-01-31	ENCODE				3, 4							ENCFF001TDO, ENCFF084PVB, ENCFF747JGV, ENCFF866OLZ	440429	ENCODE Processing Pipeline	444df22c98d4fcff23ed0065c0dcd22e		https://www.encodeproject.org/files/ENCFF012JXJ/@@download/ENCFF012JXJ.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF743FZS	bed narrowPeak	optimal idr thresholded peaks	ENCSR384LYW	ChIP-seq	CL:0000182	hepatocyte	in vitro differentiated cells	Homo sapiens				EZH2-human	DNA					False	2016-11-23	ENCODE				1, 2							ENCFF001TDO, ENCFF367LDH, ENCFF482XGS, ENCFF557NXL	211111	ENCODE Processing Pipeline	08a0432a038c13d0b4ea21714a84fb36		https://www.encodeproject.org/files/ENCFF743FZS/@@download/ENCFF743FZS.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption	NTR biosample		
ENCFF199GND	bed narrowPeak	optimal idr thresholded peaks	ENCSR923UTX	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NONO-human	DNA			SDS	formaldehyde	False	2017-08-17	ENCODE				1, 2							ENCFF001TDO, ENCFF170DYF, ENCFF246YPT, ENCFF572LJS	362880	ENCODE Processing Pipeline	ad6ac579bcd3ac2285eef43ba5157ecc		https://www.encodeproject.org/files/ENCFF199GND/@@download/ENCFF199GND.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF817QHW	bed narrowPeak	optimal idr thresholded peaks	ENCSR332EYT	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				STAT1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF073OWF, ENCFF709QKK, ENCFF921NFP	189647	ENCODE Processing Pipeline	e19074d05cfeb97f1ebf25e868bd35da		https://www.encodeproject.org/files/ENCFF817QHW/@@download/ENCFF817QHW.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption			
ENCFF557HJB	bed narrowPeak	optimal idr thresholded peaks	ENCSR332EYT	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				STAT1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF019TKV, ENCFF294YGK, ENCFF728RVS	157764	ENCODE Processing Pipeline	c32f3b3d81c77f87265210662d341469		https://www.encodeproject.org/files/ENCFF557HJB/@@download/ENCFF557HJB.bed.gz	hg19			archived	mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption			
ENCFF807AKG	bed narrowPeak	optimal idr thresholded peaks	ENCSR841NDX	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ELF1-human	DNA					False	2017-06-26	ENCODE				1, 2							ENCFF001TDO, ENCFF244PNH, ENCFF359FUJ, ENCFF756XID	584709	ENCODE Processing Pipeline	c254faee11bb0ce333fb9396a04593c5		https://www.encodeproject.org/files/ENCFF807AKG/@@download/ENCFF807AKG.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF785FBD	bed narrowPeak	optimal idr thresholded peaks	ENCSR789GVU	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				BHLHE40-human	DNA					False	2016-11-18	ENCODE				1, 2							ENCFF001TDO, ENCFF207ZRW, ENCFF562GBY, ENCFF649FUD	20912	ENCODE Processing Pipeline	000680229ad85adad7aba34745d43dd7		https://www.encodeproject.org/files/ENCFF785FBD/@@download/ENCFF785FBD.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity	duplicate lane review		
ENCFF530LSA	bed narrowPeak	optimal idr thresholded peaks	ENCSR145CXH	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TARDBP-human	DNA			SDS	formaldehyde	False	2017-12-01	ENCODE				1, 2							ENCFF001TDO, ENCFF625LUF, ENCFF640MOW, ENCFF657QUD	131195	ENCODE Processing Pipeline	4a92466ac0c7aa892d275f40b241a09e		https://www.encodeproject.org/files/ENCFF530LSA/@@download/ENCFF530LSA.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, borderline replicate concordance	experiment not submitted to GEO		
ENCFF836HHL	bed narrowPeak	optimal idr thresholded peaks	ENCSR062HDL	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				HSF1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF232NKH, ENCFF569FCI, ENCFF663REE	48324	ENCODE Processing Pipeline	8eea9b37a3808a81eaacdcb2652d7c12		https://www.encodeproject.org/files/ENCFF836HHL/@@download/ENCFF836HHL.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF688CIA	bed narrowPeak	optimal idr thresholded peaks	ENCSR062HDL	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				HSF1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF666VFP, ENCFF668OIR, ENCFF879DVA	40206	ENCODE Processing Pipeline	f32211e5a58f506e41c69c12a603bac2		https://www.encodeproject.org/files/ENCFF688CIA/@@download/ENCFF688CIA.bed.gz	hg19			archived	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF324TBP	bed narrowPeak	optimal idr thresholded peaks	ENCSR101FJU	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZNF384-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF037XHM, ENCFF147SMY, ENCFF313BLC	281422	ENCODE Processing Pipeline	5c67758efa36fc46a013b34d27c7fd43		https://www.encodeproject.org/files/ENCFF324TBP/@@download/ENCFF324TBP.bed.gz	hg19			released	low read length			
ENCFF667SBY	bed narrowPeak	optimal idr thresholded peaks	ENCSR101FJU	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZNF384-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF350PSE, ENCFF351HRN, ENCFF483GPY	263815	ENCODE Processing Pipeline	79ac1ad8128698f02ddbb9d19d94e24a		https://www.encodeproject.org/files/ENCFF667SBY/@@download/ENCFF667SBY.bed.gz	hg19			archived	low read length			
ENCFF795QZU	bed narrowPeak	optimal idr thresholded peaks	ENCSR841YWU	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				E4F1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF329QXP, ENCFF636VMF, ENCFF995GUT	66521	ENCODE Processing Pipeline	6f363b188c51b1846c21a87ed1df5d8f		https://www.encodeproject.org/files/ENCFF795QZU/@@download/ENCFF795QZU.bed.gz	hg19			released		experiment not submitted to GEO	partially characterized antibody	
ENCFF374BNP	bed narrowPeak	optimal idr thresholded peaks	ENCSR785YRL	ChIP-seq	CL:0000775	neutrophil	primary cell	Homo sapiens				CTCF-human	DNA					False	2016-12-01	ENCODE				1, 2							ENCFF001TDO, ENCFF070WIW, ENCFF536TDH, ENCFF736LBL	454345	ENCODE Processing Pipeline	683ef5fc6a8f9999e64a515baa290711		https://www.encodeproject.org/files/ENCFF374BNP/@@download/ENCFF374BNP.bed.gz	hg19			released	antibody characterized with exemption	NTR biosample		
ENCFF175IIE	bed narrowPeak	optimal idr thresholded peaks	ENCSR970NKQ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NR2F1-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF035WWJ, ENCFF224GWU, ENCFF359OAZ	603194	ENCODE Processing Pipeline	adbe9db9e3821e3e5d266adc496d2cf0		https://www.encodeproject.org/files/ENCFF175IIE/@@download/ENCFF175IIE.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF808UCP	bed narrowPeak	optimal idr thresholded peaks	ENCSR793USK	ChIP-seq	EFO:0002847	PC-9	cell line	Homo sapiens				EZH2-human	DNA					False	2017-11-13	ENCODE				1, 2							ENCFF001TDO, ENCFF258LFF, ENCFF656XHS, ENCFF819BDT	56008	ENCODE Processing Pipeline	4d3ef79bacb47f74d1904f3c34d3db11		https://www.encodeproject.org/files/ENCFF808UCP/@@download/ENCFF808UCP.bed.gz	hg19			released	borderline replicate concordance, low read depth, antibody characterized with exemption	experiment not submitted to GEO		
ENCFF502KHR	bed narrowPeak	optimal idr thresholded peaks	ENCSR638QHV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ELF4-human	DNA					False	2017-01-31	ENCODE				1, 2							ENCFF001TDO, ENCFF307JUJ, ENCFF625PVR, ENCFF734SUP	329872	ENCODE Processing Pipeline	c2e187f6d861df3100e2acf5d12e3e45		https://www.encodeproject.org/files/ENCFF502KHR/@@download/ENCFF502KHR.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption			
ENCFF812MZB	bed narrowPeak	optimal idr thresholded peaks	ENCSR234VCE	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				DPF2-human	DNA					False	2016-04-22	ENCODE				1, 2							ENCFF001TDO, ENCFF193LNB, ENCFF546YTN, ENCFF557POD	401448	ENCODE Processing Pipeline	49e790bfe0c4b66b44837cc08eccf03d		https://www.encodeproject.org/files/ENCFF812MZB/@@download/ENCFF812MZB.bed.gz	hg19			released				
ENCFF314KRZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR176EXN	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				JUN-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF344TGN, ENCFF595WOT, ENCFF960PAB	119623	ENCODE Processing Pipeline	6792d61b88b8800d7d60aa74859ea231		https://www.encodeproject.org/files/ENCFF314KRZ/@@download/ENCFF314KRZ.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption			
ENCFF836SJY	bed narrowPeak	optimal idr thresholded peaks	ENCSR176EXN	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				JUN-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF077UUI, ENCFF219RVG, ENCFF946SUD	99715	ENCODE Processing Pipeline	e58f10d97806b7dab03e0705e0213540		https://www.encodeproject.org/files/ENCFF836SJY/@@download/ENCFF836SJY.bed.gz	hg19			archived	mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption			
ENCFF004WYV	bed narrowPeak	optimal idr thresholded peaks	ENCSR211LTF	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				EGR1-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF343JJX, ENCFF634YJK, ENCFF920IJY	557721	ENCODE Processing Pipeline	f1a92ff86172ca7ec73d6ddfff66ecc4		https://www.encodeproject.org/files/ENCFF004WYV/@@download/ENCFF004WYV.bed.gz	hg19			released	low read depth			
ENCFF418DRY	bed narrowPeak	optimal idr thresholded peaks	ENCSR294JWV	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				ZFP36-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF548GLK, ENCFF589LXR, ENCFF848NAZ	207120	ENCODE Processing Pipeline	4e93c7b4d77e37b74325e30f059ada18		https://www.encodeproject.org/files/ENCFF418DRY/@@download/ENCFF418DRY.bed.gz	hg19			released	borderline replicate concordance	experiment not submitted to GEO	partially characterized antibody	
ENCFF048JWL	bed narrowPeak	optimal idr thresholded peaks	ENCSR934NHU	ChIP-seq	CL:0002319	neural cell	in vitro differentiated cells	Homo sapiens				MXI1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF291JHS, ENCFF768FVV, ENCFF958NNA	549464	ENCODE Processing Pipeline	b823de521ef5907f68bb2f6df358a678		https://www.encodeproject.org/files/ENCFF048JWL/@@download/ENCFF048JWL.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	experiment not submitted to GEO	poor library complexity, severe bottlenecking	
ENCFF193MKL	bed narrowPeak	optimal idr thresholded peaks	ENCSR729LGA	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				SP1-human	DNA					False	2016-09-01	ENCODE				1, 2							ENCFF001TDO, ENCFF096VAL, ENCFF546ASI, ENCFF852HEY	54123	ENCODE Processing Pipeline	cd90f0a39db101f4a65917b0ac20bf94		https://www.encodeproject.org/files/ENCFF193MKL/@@download/ENCFF193MKL.bed.gz	hg19			released				
ENCFF189TVG	bed narrowPeak	optimal idr thresholded peaks	ENCSR345YWJ	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				ZBTB33-human	DNA					False	2016-09-23	ENCODE				1, 2							ENCFF001TDO, ENCFF426TDF, ENCFF719LYG, ENCFF873YWK	90623	ENCODE Processing Pipeline	9dea3ec7f9807e5c95f5d056631de6be		https://www.encodeproject.org/files/ENCFF189TVG/@@download/ENCFF189TVG.bed.gz	hg19			released	borderline replicate concordance, low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF756LUP	bed narrowPeak	optimal idr thresholded peaks	ENCSR345YWJ	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				ZBTB33-human	DNA					False	2016-09-23	ENCODE				1, 2							ENCFF001TDO, ENCFF774TWW, ENCFF862YTD, ENCFF868FGE	77158	ENCODE Processing Pipeline	3d75c04365d91d1c459024b405544aae		https://www.encodeproject.org/files/ENCFF756LUP/@@download/ENCFF756LUP.bed.gz	hg19			archived	borderline replicate concordance, low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF507RHE	bed narrowPeak	optimal idr thresholded peaks	ENCSR928API	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RFX1-human	DNA					False	2017-11-14	ENCODE				2, 3							ENCFF001TDO, ENCFF458YFL, ENCFF523TOV, ENCFF905UQM	117007	ENCODE Processing Pipeline	645691ce6019368a11effa03e652dbb9		https://www.encodeproject.org/files/ENCFF507RHE/@@download/ENCFF507RHE.bed.gz	hg19			released		experiment not submitted to GEO		
ENCFF947IJX	bed narrowPeak	optimal idr thresholded peaks	ENCSR611JJS	ChIP-seq	EFO:0002106	A673	cell line	Homo sapiens				CTCF-human	DNA					False	2017-11-13	ENCODE				1, 2							ENCFF001TDO, ENCFF317YVO, ENCFF455ZJN, ENCFF799ZCH	1016359	ENCODE Processing Pipeline	33ffb92f35aa7e03fa914fe0ba386406		https://www.encodeproject.org/files/ENCFF947IJX/@@download/ENCFF947IJX.bed.gz	hg19			released	moderate library complexity, low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption, mixed read lengths	NTR biosample, experiment not submitted to GEO		
ENCFF827MDC	bed narrowPeak	optimal idr thresholded peaks	ENCSR277OOQ	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				ZC3H11A-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF087DBS, ENCFF088LGL, ENCFF279PWU	140359	ENCODE Processing Pipeline	ace047c77db01927a4f200d44940abe0		https://www.encodeproject.org/files/ENCFF827MDC/@@download/ENCFF827MDC.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF968KBN	bed narrowPeak	optimal idr thresholded peaks	ENCSR869IUD	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ATF2-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF513RYS, ENCFF759MWN, ENCFF826QEY	723708	ENCODE Processing Pipeline	4aad24f6ab0ecc423ff32a4a1989e087		https://www.encodeproject.org/files/ENCFF968KBN/@@download/ENCFF968KBN.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF246HIM	bed narrowPeak	optimal idr thresholded peaks	ENCSR198ZYJ	ChIP-seq	CL:0002319	neural cell	in vitro differentiated cells	Homo sapiens				RAD21-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF406ZDS, ENCFF567WYM, ENCFF830CSU	831522	ENCODE Processing Pipeline	7be299ee1f00b328b82605fa5e21fa6b		https://www.encodeproject.org/files/ENCFF246HIM/@@download/ENCFF246HIM.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption			
ENCFF809YFY	bed narrowPeak	optimal idr thresholded peaks	ENCSR819LHG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				FOXA1-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF113ZZY, ENCFF837QWL, ENCFF996FCB	26422	ENCODE Processing Pipeline	853ae621eda61d33788aa4e3acaa8aba		https://www.encodeproject.org/files/ENCFF809YFY/@@download/ENCFF809YFY.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF099NBE	bed narrowPeak	optimal idr thresholded peaks	ENCSR125DKL	ChIP-seq	EFO:0002357	SU-DHL-6	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2017-11-29	ENCODE				1, 2							ENCFF001TDO, ENCFF206YWO, ENCFF708ZIZ, ENCFF967NOV	1308100	ENCODE Processing Pipeline	a0c9fc2538edaf3c7e6d716df6894959		https://www.encodeproject.org/files/ENCFF099NBE/@@download/ENCFF099NBE.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO	insufficient read depth, poor library complexity, severe bottlenecking	
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			
ENCFF699VTO	bed narrowPeak	optimal idr thresholded peaks	ENCSR219NRT	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				GTF2F1-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF138YIB, ENCFF155XFE, ENCFF489KKG	43926	ENCODE Processing Pipeline	9a41d61d15754115a3ad3a8dcc0af86c		https://www.encodeproject.org/files/ENCFF699VTO/@@download/ENCFF699VTO.bed.gz	hg19			archived	low read length, low read depth			
ENCFF694UJI	bed narrowPeak	optimal idr thresholded peaks	ENCSR219NRT	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				GTF2F1-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF266NSN, ENCFF401ZKP, ENCFF808UFI	48543	ENCODE Processing Pipeline	8c61a3021ba1648497bcc6c7e1a1d4d7		https://www.encodeproject.org/files/ENCFF694UJI/@@download/ENCFF694UJI.bed.gz	hg19			released	low read length, low read depth			
ENCFF002CMQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRR	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				STAT5A-human	DNA		see document	see document		False	2012-02-29	ENCODE												221518	ENCODE Consortium Analysis Working Group	3e5196912f2efefafdfbb24469bf2423		https://www.encodeproject.org/files/ENCFF002CMQ/@@download/ENCFF002CMQ.bed.gz	hg19			archived	low read length, borderline replicate concordance, inconsistent platforms	biological replicates with identical biosample, missing derived_from		
ENCFF696KPD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRR	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				STAT5A-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF373WLW, ENCFF556KAN, ENCFF562UJV	241687	ENCODE Processing Pipeline	c7fe8f342e3192db1d65922e864f8c7e		https://www.encodeproject.org/files/ENCFF696KPD/@@download/ENCFF696KPD.bed.gz	hg19			released	low read length, borderline replicate concordance, inconsistent platforms	biological replicates with identical biosample		
ENCFF471ZTZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR613NUC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ARNT-human	DNA					False	2016-12-19	ENCODE				1, 2							ENCFF001TDO, ENCFF505URD, ENCFF829KFC, ENCFF848FSH	309156	ENCODE Processing Pipeline	720a3ea4fe1bb47e81c212a2969a67f6		https://www.encodeproject.org/files/ENCFF471ZTZ/@@download/ENCFF471ZTZ.bed.gz	hg19			released				
ENCFF662IOC	bed narrowPeak	optimal idr thresholded peaks	ENCSR430YRJ	ChIP-seq	EFO:0005694	KMS-11	cell line	Homo sapiens				CTCF-human	DNA					False	2017-11-13	ENCODE				1, 2							ENCFF001TDO, ENCFF578FSD, ENCFF595GMF, ENCFF850KMN	889131	ENCODE Processing Pipeline	88ccf4f9fadb93f1bcfff9069c661557		https://www.encodeproject.org/files/ENCFF662IOC/@@download/ENCFF662IOC.bed.gz	hg19			released	moderate library complexity, low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption, mixed read lengths	NTR biosample, experiment not submitted to GEO		
ENCFF421PBO	bed narrowPeak	optimal idr thresholded peaks	ENCSR084RDK	ChIP-seq	EFO:0002167	DOHH2	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2014-07-11	ENCODE				1, 2							ENCFF001TDO, ENCFF268CZL, ENCFF459CAS, ENCFF824YYD	1053984	ENCODE Processing Pipeline	d43f7f5ed061c81af73fc2007fc4995e		https://www.encodeproject.org/files/ENCFF421PBO/@@download/ENCFF421PBO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption	NTR biosample	poor library complexity, severe bottlenecking	
ENCFF975IRM	bed narrowPeak	optimal idr thresholded peaks	ENCSR670JDQ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				RB1-human	DNA					False	2017-03-16	ENCODE				3, 4							ENCFF001TDO, ENCFF197MJO, ENCFF634SVO, ENCFF801LNJ	469880	ENCODE Processing Pipeline	36677304d38b5f80815daf0f71286681		https://www.encodeproject.org/files/ENCFF975IRM/@@download/ENCFF975IRM.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF942FBW	bed narrowPeak	optimal idr thresholded peaks	ENCSR957KYB	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				BHLHE40-human	DNA					False	2016-09-01	ENCODE				1, 2							ENCFF001TDO, ENCFF088IEB, ENCFF619TUA, ENCFF940YUU	463177	ENCODE Processing Pipeline	e4cca3a1db075fe4246889df1b37db5f		https://www.encodeproject.org/files/ENCFF942FBW/@@download/ENCFF942FBW.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	duplicate lane review		
ENCFF823SYE	bed narrowPeak	optimal idr thresholded peaks	ENCSR715CCR	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				DPF2-human	DNA					False	2016-04-22	ENCODE				1, 2							ENCFF001TDO, ENCFF023VOJ, ENCFF577FLU, ENCFF994IZJ	812173	ENCODE Processing Pipeline	59b72560947ff818b0d51aac88596a9b		https://www.encodeproject.org/files/ENCFF823SYE/@@download/ENCFF823SYE.bed.gz	hg19			released				
ENCFF297BXM	bed narrowPeak	optimal idr thresholded peaks	ENCSR488EES	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NFE2L2-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF126HBJ, ENCFF144BHZ, ENCFF596MOA	170579	ENCODE Processing Pipeline	bee2941bec91c7c87a5e2348f00cbff5		https://www.encodeproject.org/files/ENCFF297BXM/@@download/ENCFF297BXM.bed.gz	hg19			released	low read length			
ENCFF928POR	bed narrowPeak	optimal idr thresholded peaks	ENCSR488EES	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NFE2L2-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF128XNM, ENCFF555MVU, ENCFF774CXV	156347	ENCODE Processing Pipeline	11db2a9f2b96341e423d0f808874e03c		https://www.encodeproject.org/files/ENCFF928POR/@@download/ENCFF928POR.bed.gz	hg19			archived	low read length			
ENCFF357WYN	bed narrowPeak	optimal idr thresholded peaks	ENCSR189YYK	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZBTB40-human	DNA					False	2016-09-20	ENCODE				1, 2							ENCFF001TDO, ENCFF297SZY, ENCFF321DBH, ENCFF742SNU	335989	ENCODE Processing Pipeline	2daa2dcb35564976ae966e9a8f326dce		https://www.encodeproject.org/files/ENCFF357WYN/@@download/ENCFF357WYN.bed.gz	hg19			released	file validation error, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity	mismatched file status		
ENCFF906IMT	bed narrowPeak	optimal idr thresholded peaks	ENCSR382XLA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZFP36-human	DNA					False	2018-01-26	ENCODE				2, 3							ENCFF001TDO, ENCFF722ERB, ENCFF806XIE, ENCFF844TSM	61616	ENCODE Processing Pipeline	9b285ff6f7a58bdc0f47d6bbb2e49475		https://www.encodeproject.org/files/ENCFF906IMT/@@download/ENCFF906IMT.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF125YHG	bed narrowPeak	optimal idr thresholded peaks	ENCSR481YWD	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				SMC3-human	DNA					False	2016-10-31	ENCODE				1, 2							ENCFF001TDO, ENCFF371DJF, ENCFF787LTE, ENCFF953EDE	351597	ENCODE Processing Pipeline	912d123a1abc3ca45eb6c1e41fea7608		https://www.encodeproject.org/files/ENCFF125YHG/@@download/ENCFF125YHG.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF058NMZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR991ELG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SP1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF422VXS, ENCFF459WKK, ENCFF699WES	223612	ENCODE Processing Pipeline	573eb94247a08300f7c022e4b16aeff5		https://www.encodeproject.org/files/ENCFF058NMZ/@@download/ENCFF058NMZ.bed.gz	hg19			archived	mild to moderate bottlenecking, low read depth			
ENCFF300XUA	bed narrowPeak	optimal idr thresholded peaks	ENCSR991ELG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SP1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF103ESU, ENCFF269OJD, ENCFF778OYJ	267916	ENCODE Processing Pipeline	375188392fd2e30179eec9249863ee49		https://www.encodeproject.org/files/ENCFF300XUA/@@download/ENCFF300XUA.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF572YVL	bed narrowPeak	optimal idr thresholded peaks	ENCSR017CEO	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CUX1-human	DNA					False	2016-06-14	ENCODE				2, 3							ENCFF001TDO, ENCFF411WAC, ENCFF508BAI, ENCFF876DVV	310550	ENCODE Processing Pipeline	f198a4bd13b4f6eea757257bd24eb6e7		https://www.encodeproject.org/files/ENCFF572YVL/@@download/ENCFF572YVL.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF002CVC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFA	ChIP-seq	CL:0002618	endothelial cell of umbilical vein	primary cell	Homo sapiens				JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE												682671	ENCODE Consortium Analysis Working Group	633e29aea0b8daae7a7633161281b118		https://www.encodeproject.org/files/ENCFF002CVC/@@download/ENCFF002CVC.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF072ZEU	bed narrowPeak	optimal idr thresholded peaks	ENCSR125NBL	ChIP-seq	NTR:0000711	neural progenitor cell	in vitro differentiated cells	Homo sapiens				CTCF-human	DNA					False	2017-10-19	ENCODE				1, 2							ENCFF001TDO, ENCFF230HEO, ENCFF888EDU, ENCFF983BJS	1051859	ENCODE Processing Pipeline	1aeb7830409a87e0443bd93fbd773235		https://www.encodeproject.org/files/ENCFF072ZEU/@@download/ENCFF072ZEU.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF905EBM	bed narrowPeak	optimal idr thresholded peaks	ENCSR703KWN	ChIP-seq	EFO:0005724	MM.1S	cell line	Homo sapiens				EZH2-human	DNA					False	2017-12-14	ENCODE				1, 2							ENCFF001TDO, ENCFF138QJZ, ENCFF355WZV, ENCFF725JDK	27025	ENCODE Processing Pipeline	6f8fb897b7d3c2a99b4b4753454bc67f		https://www.encodeproject.org/files/ENCFF905EBM/@@download/ENCFF905EBM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption, mixed read lengths	experiment not submitted to GEO		
ENCFF911RQN	bed narrowPeak	optimal idr thresholded peaks	ENCSR753GIA	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				TARDBP-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF278ZIL, ENCFF397APL, ENCFF614ENJ	60947	ENCODE Processing Pipeline	057cbd7bec7f84d0b6e7978a79558d2e		https://www.encodeproject.org/files/ENCFF911RQN/@@download/ENCFF911RQN.bed.gz	hg19			released				
ENCFF002CNN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQF	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2012-02-29	ENCODE												312512	ENCODE Consortium Analysis Working Group	f7d783668cd94e5bdfcd189e4507f1ac		https://www.encodeproject.org/files/ENCFF002CNN/@@download/ENCFF002CNN.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF883EGI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQF	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF363MZC, ENCFF534OBN, ENCFF893LMP	296975	ENCODE Processing Pipeline	a0c63d69cf64140819bd535ff869d781		https://www.encodeproject.org/files/ENCFF883EGI/@@download/ENCFF883EGI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample		
ENCFF965AIZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR569XNP	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				FOS-human	DNA					False	2016-12-19	ENCODE				1, 3							ENCFF001TDO, ENCFF124QJZ, ENCFF540SXF, ENCFF834BCC	1138063	ENCODE Processing Pipeline	23514fe2f2689d4cb62e6fe4fc279273		https://www.encodeproject.org/files/ENCFF965AIZ/@@download/ENCFF965AIZ.bed.gz	hg19			released		duplicate lane review		
ENCFF582SHF	bed narrowPeak	optimal idr thresholded peaks	ENCSR404BPV	ChIP-seq	CL:0002319	neural cell	in vitro differentiated cells	Homo sapiens				SMC3-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF040TAT, ENCFF067FOD, ENCFF975MKK	902257	ENCODE Processing Pipeline	1913e84f8d444712f5c7cb57f2ee697a		https://www.encodeproject.org/files/ENCFF582SHF/@@download/ENCFF582SHF.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption	experiment not submitted to GEO	poor library complexity	
ENCFF088WYS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BSA	ChIP-seq	EFO:0002824	HCT116	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2012-09-10	ENCODE				1, 2							ENCFF001TDO, ENCFF215YYW, ENCFF383XWW, ENCFF772HIT	429111	ENCODE Processing Pipeline	552adbf4f3cb71bf7ca90692e963e8df		https://www.encodeproject.org/files/ENCFF088WYS/@@download/ENCFF088WYS.bed.gz	hg19			released	low read depth	biological replicates with identical biosample		missing control alignments
ENCFF545VNY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FCE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ETV6-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF235BMG, ENCFF539MNA, ENCFF915TWO	122108	ENCODE Processing Pipeline	a29ad50d06ead7823ea05e7b4a848633		https://www.encodeproject.org/files/ENCFF545VNY/@@download/ENCFF545VNY.bed.gz	hg19			released	low read depth, antibody characterized with exemption			
ENCFF660VPM	bed narrowPeak	optimal idr thresholded peaks	ENCSR124BJR	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ETV6-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF315GZR, ENCFF558BWS, ENCFF611XPF	48570	ENCODE Processing Pipeline	627872c6c63dc5283d8687e9efa8fe7b		https://www.encodeproject.org/files/ENCFF660VPM/@@download/ENCFF660VPM.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth			
ENCFF675TLS	bed narrowPeak	optimal idr thresholded peaks	ENCSR267DFA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOXA1-human	DNA					False	2016-07-28	ENCODE				1, 2							ENCFF001TDO, ENCFF400BJI, ENCFF432MIZ, ENCFF549YDX	167811	ENCODE Processing Pipeline	34278c629fe0428ac2f4c6dfa275bc15		https://www.encodeproject.org/files/ENCFF675TLS/@@download/ENCFF675TLS.bed.gz	hg19			released				
ENCFF941ZLF	bed narrowPeak	optimal idr thresholded peaks	ENCSR783QUL	ChIP-seq	EFO:0007112	Loucy	cell line	Homo sapiens				EZH2phosphoT487-human	DNA					False	2018-02-06	ENCODE				1, 2							ENCFF001TDO, ENCFF107IVH, ENCFF262SHR, ENCFF407UZQ	21974	ENCODE Processing Pipeline	8ab509e27ba0756df3d37fedaf0bc99d		https://www.encodeproject.org/files/ENCFF941ZLF/@@download/ENCFF941ZLF.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF499OUD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRF	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	JUND-human	DNA		see document	see document		False	2012-09-10	ENCODE				1, 2							ENCFF001TDO, ENCFF154EAD, ENCFF740MCA, ENCFF804HAX	358511	ENCODE Processing Pipeline	7009bdfb16748b7dc7f7f7d5c9b2d1ec		https://www.encodeproject.org/files/ENCFF499OUD/@@download/ENCFF499OUD.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF901BGG	bed narrowPeak	optimal idr thresholded peaks	ENCSR673WZL	ChIP-seq	EFO:0002071	LNCAP	cell line	Homo sapiens	17β-hydroxy-5α-androstan-3-one	10 nM	4 hour	CTCF-human	DNA					False	2017-06-29	ENCODE				1, 2							ENCFF001TDO, ENCFF265NZD, ENCFF499RVM, ENCFF696QFR	771337	ENCODE Processing Pipeline	7c52b039f0a5e21db97ef3f12a4d997b		https://www.encodeproject.org/files/ENCFF901BGG/@@download/ENCFF901BGG.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF116DIO	bed narrowPeak	optimal idr thresholded peaks	ENCSR018MSO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				eGFP-ZNF148-human	DNA					False	2017-12-01	ENCODE				3, 4							ENCFF001TDO, ENCFF297GYL, ENCFF890QZH, ENCFF985CUX	412739	ENCODE Processing Pipeline	1373edacc8e8c659850e64d69646692f		https://www.encodeproject.org/files/ENCFF116DIO/@@download/ENCFF116DIO.bed.gz	hg19			released	missing genetic modification characterization	experiment not submitted to GEO		
ENCFF002CSG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVJ	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				E2F1-human	DNA		see document	see document		False	2011-10-29	ENCODE												129469	ENCODE Consortium Analysis Working Group	ef923581e8e46df0f60fbaf91c75ca6e		https://www.encodeproject.org/files/ENCFF002CSG/@@download/ENCFF002CSG.bed.gz	hg19			released	inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF581YKY	bed narrowPeak	optimal idr thresholded peaks	ENCSR986CDX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NEUROD1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF314SAN, ENCFF334IIE, ENCFF973JKQ	252531	ENCODE Processing Pipeline	de1c71d16bed9d96dcff38981ba5dd30		https://www.encodeproject.org/files/ENCFF581YKY/@@download/ENCFF581YKY.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF640LEB	bed narrowPeak	optimal idr thresholded peaks	ENCSR297MUV	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				EZH2phosphoT487-human	DNA					False	2017-01-15	ENCODE				1, 2							ENCFF001TDO, ENCFF139FDW, ENCFF252AKV, ENCFF978OGV	35158	ENCODE Processing Pipeline	bd8c5e4680bcbbd808ba239c174fd1a6		https://www.encodeproject.org/files/ENCFF640LEB/@@download/ENCFF640LEB.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, mild to moderate bottlenecking, mixed run types, low read depth, antibody characterized with exemption	NTR biosample		
ENCFF760IFZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR626VUC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ETV6-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF021LAP, ENCFF283QCO, ENCFF305DNA	370617	ENCODE Processing Pipeline	fc6b1747ced34ffb5b0c695b5120610d		https://www.encodeproject.org/files/ENCFF760IFZ/@@download/ENCFF760IFZ.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption	mismatched file status		
ENCFF692GBM	bed narrowPeak	optimal idr thresholded peaks	ENCSR626VUC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ETV6-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF162BDU, ENCFF496IEH, ENCFF777XYO	337339	ENCODE Processing Pipeline	1acc555b446c6ccf848d0b6257a65ad6		https://www.encodeproject.org/files/ENCFF692GBM/@@download/ENCFF692GBM.bed.gz	hg19			archived	borderline replicate concordance, antibody characterized with exemption	mismatched file status		
ENCFF583CIY	bed narrowPeak	optimal idr thresholded peaks	ENCSR494UQJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NR3C1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF269CZZ, ENCFF923WYM, ENCFF939VKQ	73618	ENCODE Processing Pipeline	fab8230df4fac667f59e49a65da4daab		https://www.encodeproject.org/files/ENCFF583CIY/@@download/ENCFF583CIY.bed.gz	hg19			released	borderline replicate concordance, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF988IOQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMF	ChIP-seq	EFO:0005726	LNCaP clone FGC	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF195CRO, ENCFF337SGV, ENCFF867DDR	835569	ENCODE Processing Pipeline	229b8bc3f4c57961455ee29ab67d5f55		https://www.encodeproject.org/files/ENCFF988IOQ/@@download/ENCFF988IOQ.bed.gz	hg19			released	mild to moderate bottlenecking	biological replicates with identical biosample	control insufficient read depth, insufficient read depth	
ENCFF147MAN	bed narrowPeak	optimal idr thresholded peaks	ENCSR444LIN	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TCF7-human	DNA					False	2016-08-10	ENCODE				1, 2							ENCFF001TDO, ENCFF237AGN, ENCFF412SBF, ENCFF575WAL	334161	ENCODE Processing Pipeline	10b950f75ae36b7a32659dcdfc3bd99b		https://www.encodeproject.org/files/ENCFF147MAN/@@download/ENCFF147MAN.bed.gz	hg19			released	low read depth, antibody characterized with exemption			
ENCFF428XZH	bed narrowPeak	optimal idr thresholded peaks	ENCSR444LIN	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TCF7-human	DNA					False	2016-08-10	ENCODE				1, 2							ENCFF001TDO, ENCFF048TGI, ENCFF137OKC, ENCFF457RQE	294047	ENCODE Processing Pipeline	e491a3131d2ab3ff3d4fb2e3cb009822		https://www.encodeproject.org/files/ENCFF428XZH/@@download/ENCFF428XZH.bed.gz	hg19			archived	low read depth, antibody characterized with exemption			
ENCFF150STV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIO	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF326RDQ, ENCFF734DHL, ENCFF978KSK	11618	ENCODE Processing Pipeline	2505f610e615fcc77e60f7bbc8ef9d14		https://www.encodeproject.org/files/ENCFF150STV/@@download/ENCFF150STV.bed.gz	hg19			released	control low read depth, low read length, low read depth	biological replicates with identical biosample		
ENCFF615FIR	bed narrowPeak	optimal idr thresholded peaks	ENCSR028NUR	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZNF592-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF096FDT, ENCFF134UIM, ENCFF185LGF	16924	ENCODE Processing Pipeline	87ab6ffc70c2d9d03c2b87caf8e4673b		https://www.encodeproject.org/files/ENCFF615FIR/@@download/ENCFF615FIR.bed.gz	hg19			released	borderline replicate concordance, low read depth			
ENCFF002CJJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIQ	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				SIX5-human	DNA		see document	see document		False	2011-07-18	ENCODE												74149	ENCODE Consortium Analysis Working Group	bcd6754c04414593085c871e04823a05		https://www.encodeproject.org/files/ENCFF002CJJ/@@download/ENCFF002CJJ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	missing derived_from, biological replicates with identical biosample		missing control alignments
ENCFF318SDF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIQ	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				SIX5-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF493YRO, ENCFF883CRS, ENCFF946SYP	56542	ENCODE Processing Pipeline	a99c9330c815a30deec33b4d13251ca2		https://www.encodeproject.org/files/ENCFF318SDF/@@download/ENCFF318SDF.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		missing control alignments
ENCFF315YAF	bed narrowPeak	optimal idr thresholded peaks	ENCSR038DJJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SMAD1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF067UPX, ENCFF328DUA, ENCFF567MRG	163107	ENCODE Processing Pipeline	00df6f6748c20e2ecc98bc3d078b2bd2		https://www.encodeproject.org/files/ENCFF315YAF/@@download/ENCFF315YAF.bed.gz	hg19			released	low read length, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF002CGY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKA	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ETS1-human	DNA		see document	see document		False	2011-07-18	ENCODE												82458	ENCODE Consortium Analysis Working Group	4d8a69baf039742337c0db70c72aad8a		https://www.encodeproject.org/files/ENCFF002CGY/@@download/ENCFF002CGY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF332PGQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKA	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ETS1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF075PCI, ENCFF570ZKC, ENCFF883DUG	223403	ENCODE Processing Pipeline	e5bebc61c5e4cd79bae1c050a283c860		https://www.encodeproject.org/files/ENCFF332PGQ/@@download/ENCFF332PGQ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample		
ENCFF002CIP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIB	ChIP-seq	EFO:0002786	GM12892	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												210664	ENCODE Consortium Analysis Working Group	c5eac5902cb7db64edab571c0e42a3b1		https://www.encodeproject.org/files/ENCFF002CIP/@@download/ENCFF002CIP.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking	biological replicates with identical biosample, missing derived_from		
ENCFF713IVN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIB	ChIP-seq	EFO:0002786	GM12892	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF365FTH, ENCFF452NTV, ENCFF556WPW	210518	ENCODE Processing Pipeline	69d8b7fd6e1831171aa71f7a143393a4		https://www.encodeproject.org/files/ENCFF713IVN/@@download/ENCFF713IVN.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking	biological replicates with identical biosample		
ENCFF123WEZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR207PFI	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZBED1-human	DNA					False	2016-02-05	ENCODE				1, 2							ENCFF001TDO, ENCFF196ECC, ENCFF493ZGH, ENCFF846TRX	217520	ENCODE Processing Pipeline	6c56ef3935736be7731a0100ba97731f		https://www.encodeproject.org/files/ENCFF123WEZ/@@download/ENCFF123WEZ.bed.gz	hg19			released	borderline replicate concordance			
ENCFF002CKL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJK	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				GABPA-human	DNA		see document	see document		False	2011-07-18	ENCODE												208155	ENCODE Consortium Analysis Working Group	b71d28c42d7022e7d52efc24a27e5ce7		https://www.encodeproject.org/files/ENCFF002CKL/@@download/ENCFF002CKL.bed.gz	hg19			archived	low read length, low read depth	missing derived_from, biological replicates with identical biosample		
ENCFF065EPE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJK	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				GABPA-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF348PXE, ENCFF451PTD, ENCFF539SWX	145608	ENCODE Processing Pipeline	fb8bebc60129799408d9866b62709e23		https://www.encodeproject.org/files/ENCFF065EPE/@@download/ENCFF065EPE.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF208AFB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDO	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CEBPZ-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF038ZOH, ENCFF884XPS, ENCFF929SGA	9470	ENCODE Processing Pipeline	d920db9d39dce27b60ab03fd7bb65dad		https://www.encodeproject.org/files/ENCFF208AFB/@@download/ENCFF208AFB.bed.gz	hg19			released	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF061UXU	bed narrowPeak	optimal idr thresholded peaks	ENCSR088HZI	ChIP-seq	EFO:0002357	SU-DHL-6	cell line	Homo sapiens				EZH2phosphoT487-human	DNA		see document	see document		False	2018-02-06	ENCODE				1, 2							ENCFF001TDO, ENCFF924QYS, ENCFF930CDD, ENCFF947XIL	27293	ENCODE Processing Pipeline	b8106da77faf4812f9415741a7eae9df		https://www.encodeproject.org/files/ENCFF061UXU/@@download/ENCFF061UXU.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, antibody characterized with exemption, mixed read lengths	NTR biosample, experiment not submitted to GEO		
ENCFF002CVR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BRF1-human	DNA		see document	see document		False	2011-10-29	ENCODE												5144	ENCODE Consortium Analysis Working Group	64986bc4157feecb565adbfe599fcc07		https://www.encodeproject.org/files/ENCFF002CVR/@@download/ENCFF002CVR.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CUJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDS	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2012-05-14	ENCODE												305935	ENCODE Consortium Analysis Working Group	a26edd5eb837b1e381118d2460558d40		https://www.encodeproject.org/files/ENCFF002CUJ/@@download/ENCFF002CUJ.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF922GRD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDS	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF447AAX, ENCFF617LWA, ENCFF969FOU	271367	ENCODE Processing Pipeline	4f3c95d6b517e83237e0771cb7daffc3		https://www.encodeproject.org/files/ENCFF922GRD/@@download/ENCFF922GRD.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CKH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHP	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOSL2-human	DNA		see document	see document		False	2011-07-18	ENCODE												630365	ENCODE Consortium Analysis Working Group	dadb42dd9dc14b87216f6e61eb55680e		https://www.encodeproject.org/files/ENCFF002CKH/@@download/ENCFF002CKH.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF395KPJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHP	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOSL2-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF449NJO, ENCFF620ZIR, ENCFF661ITW	531483	ENCODE Processing Pipeline	a2910e76c630f09cb73f1015633b84ff		https://www.encodeproject.org/files/ENCFF395KPJ/@@download/ENCFF395KPJ.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth	biological replicates with identical biosample		
ENCFF476URH	bed narrowPeak	optimal idr thresholded peaks	ENCSR912NMR	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				NONO-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF540KAO, ENCFF638XZN, ENCFF812IYD	74111	ENCODE Processing Pipeline	48db844ee2c1805a2828a25d5793f6f0		https://www.encodeproject.org/files/ENCFF476URH/@@download/ENCFF476URH.bed.gz	hg19			released	borderline replicate concordance			
ENCFF002CHT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RXRA-human	DNA		see document	see document		False	2011-07-18	ENCODE												33163	ENCODE Consortium Analysis Working Group	1fcda1bc2495dce47bb851030913fa90		https://www.encodeproject.org/files/ENCFF002CHT/@@download/ENCFF002CHT.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking	missing derived_from, biological replicates with identical biosample	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF461FGJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RXRA-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF222RUB, ENCFF455MUC, ENCFF595JYV	37777	ENCODE Processing Pipeline	47844d64dbbeff89ad267f2a4b329b58		https://www.encodeproject.org/files/ENCFF461FGJ/@@download/ENCFF461FGJ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking	biological replicates with identical biosample	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF002CGF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPM	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	YY1-human	DNA		see document	see document		False	2012-02-29	ENCODE												225823	ENCODE Consortium Analysis Working Group	08d661b252ca4942d8a9c8bdb11857de		https://www.encodeproject.org/files/ENCFF002CGF/@@download/ENCFF002CGF.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample, missing derived_from		missing control alignments
ENCFF713ISJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPM	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	YY1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF515CEL, ENCFF697EFZ, ENCFF845YAV	301323	ENCODE Processing Pipeline	e4881f3221759f989a49836abc46b388		https://www.encodeproject.org/files/ENCFF713ISJ/@@download/ENCFF713ISJ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample		missing control alignments
ENCFF002CZT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWY	ChIP-seq	EFO:0005236	NT2/D1	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2011-10-29	ENCODE												17080	ENCODE Consortium Analysis Working Group	57fb678cb81a0cb0bc0cd4329ecf7308		https://www.encodeproject.org/files/ENCFF002CZT/@@download/ENCFF002CZT.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF102VYH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWY	ChIP-seq	EFO:0005236	NT2/D1	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF237BUA, ENCFF562GZU, ENCFF715NVD	24193	ENCODE Processing Pipeline	83dfc249b0090c28a37144f1a52b85b5		https://www.encodeproject.org/files/ENCFF102VYH/@@download/ENCFF102VYH.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF502JKO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYC	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF511NBR, ENCFF657NEN, ENCFF878NMO	176030	ENCODE Processing Pipeline	36b284c7db5e41dcb7214b5fbfe05542		https://www.encodeproject.org/files/ENCFF502JKO/@@download/ENCFF502JKO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CZX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXR	ChIP-seq	CL:0000765	erythroblast	primary cell	Homo sapiens				GATA1-human	DNA		see document	see document		False	2011-10-29	ENCODE												59044	ENCODE Consortium Analysis Working Group	77c725f5d93f6ab088d6e5f4df5be40c		https://www.encodeproject.org/files/ENCFF002CZX/@@download/ENCFF002CZX.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF762DRA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXR	ChIP-seq	CL:0000765	erythroblast	primary cell	Homo sapiens				GATA1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF039AWP, ENCFF218LZW, ENCFF535FRY	45054	ENCODE Processing Pipeline	c9f963785903b49b7b904c1bc8eee567		https://www.encodeproject.org/files/ENCFF762DRA/@@download/ENCFF762DRA.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample		
ENCFF002DCS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTL	ChIP-seq	CL:0000706	choroid plexus epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HKX, ENCFF001HLC	1206074	ENCODE Consortium Analysis Working Group	caa5260e6a967b9abfb921c04eddf43d		https://www.encodeproject.org/files/ENCFF002DCS/@@download/ENCFF002DCS.bed.gz	hg19			archived	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth			
ENCFF700ILD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTL	ChIP-seq	CL:0000706	choroid plexus epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF009MRG, ENCFF507VHP, ENCFF680YPK	1007156	ENCODE Processing Pipeline	7b2e0a041b8477ea6dab8a9cee310a18		https://www.encodeproject.org/files/ENCFF700ILD/@@download/ENCFF700ILD.bed.gz	hg19			released	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth			
ENCFF002DAT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DLN	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-03-17	ENCODE												65300	ENCODE Consortium Analysis Working Group	f4de50376077a81956bb99bdc2acd914		https://www.encodeproject.org/files/ENCFF002DAT/@@download/ENCFF002DAT.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	extremely low read depth
ENCFF774QKS	bed narrowPeak	optimal idr thresholded peaks	ENCSR219BXP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				DPF2-human	DNA					False	2017-11-14	ENCODE				1, 3							ENCFF001TDO, ENCFF209OUR, ENCFF400FLC, ENCFF403MEX	479386	ENCODE Processing Pipeline	cc53d3d9760a5e427276184bfc555bbe		https://www.encodeproject.org/files/ENCFF774QKS/@@download/ENCFF774QKS.bed.gz	hg19			released	borderline replicate concordance	experiment not submitted to GEO		
ENCFF784YVX	bed narrowPeak	optimal idr thresholded peaks	ENCSR680OFU	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				EP300-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF023IGO, ENCFF125VLX, ENCFF467DQG	390862	ENCODE Processing Pipeline	b98b1c410b37001d2fca2870513dfffb		https://www.encodeproject.org/files/ENCFF784YVX/@@download/ENCFF784YVX.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, antibody characterized with exemption	experiment not submitted to GEO		
ENCFF557KGA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZBTB33-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF734JFJ, ENCFF770YEM, ENCFF839PVK	40188	ENCODE Processing Pipeline	aeba6b6c81f68e85e8ad06ed88b5c5cc		https://www.encodeproject.org/files/ENCFF557KGA/@@download/ENCFF557KGA.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF445ANP	bed narrowPeak	optimal idr thresholded peaks	ENCSR200CUA	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				HDGF-human	DNA					False	2016-06-23	ENCODE				1, 2							ENCFF001TDO, ENCFF026WLK, ENCFF766QJJ, ENCFF846AFR	78411	ENCODE Processing Pipeline	667ac466c60ad43c4538ca0023c227e1		https://www.encodeproject.org/files/ENCFF445ANP/@@download/ENCFF445ANP.bed.gz	hg19			released	borderline replicate concordance			
ENCFF010UHD	bed narrowPeak	optimal idr thresholded peaks	ENCSR968GIB	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				RFX1-human	DNA					False	2016-09-20	ENCODE				3, 4							ENCFF001TDO, ENCFF163OZR, ENCFF733TAS, ENCFF786DOF	347670	ENCODE Processing Pipeline	807a6c046733e6afc5f75fcff16832d9		https://www.encodeproject.org/files/ENCFF010UHD/@@download/ENCFF010UHD.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF453CYS	bed narrowPeak	optimal idr thresholded peaks	ENCSR261EDU	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MNT-human	DNA					False	2016-07-28	ENCODE				1, 2							ENCFF001TDO, ENCFF233WRK, ENCFF471EDO, ENCFF777ZCS	662021	ENCODE Processing Pipeline	65e3de7b1b6c017563759ecdd75a19e1		https://www.encodeproject.org/files/ENCFF453CYS/@@download/ENCFF453CYS.bed.gz	hg19			released				
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				
ENCFF002CYJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGB	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TBL1XR1-human	DNA		see document	see document		False	2012-05-14	ENCODE												190993	ENCODE Consortium Analysis Working Group	ff50199d757b891bf404ac2488933573		https://www.encodeproject.org/files/ENCFF002CYJ/@@download/ENCFF002CYJ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF626MVT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGB	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TBL1XR1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF205BAR, ENCFF676HRI, ENCFF850MTK	276959	ENCODE Processing Pipeline	2431f6463d18398443482deaf2effc00		https://www.encodeproject.org/files/ENCFF626MVT/@@download/ENCFF626MVT.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CJK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIR	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				SP1-human	DNA		see document	see document		False	2011-07-18	ENCODE												294919	ENCODE Consortium Analysis Working Group	aab140e1c863b7cec5f3f96c7cb939e2		https://www.encodeproject.org/files/ENCFF002CJK/@@download/ENCFF002CJK.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF317TBZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIR	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				SP1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF384GPX, ENCFF668CZT, ENCFF721YVP	358846	ENCODE Processing Pipeline	153f620eadc2ac2a8cf56b12fe87a91e		https://www.encodeproject.org/files/ENCFF317TBZ/@@download/ENCFF317TBZ.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF690BYG	bed narrowPeak	optimal idr thresholded peaks	ENCSR254YRM	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				CTCF-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF181QAF, ENCFF322UFN, ENCFF543EHV	653750	ENCODE Processing Pipeline	b2a17b20c503b24c30195b69ff0f22f4		https://www.encodeproject.org/files/ENCFF690BYG/@@download/ENCFF690BYG.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	experiment not submitted to GEO	missing input control	missing control alignments
ENCFF002DCU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTR	ChIP-seq	CL:0002252	epithelial cell of esophagus	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001XQP, ENCFF001XQQ	971278	ENCODE Consortium Analysis Working Group	5ae6a367e15ecc7f2c42171d320a6aa5		https://www.encodeproject.org/files/ENCFF002DCU/@@download/ENCFF002DCU.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms		insufficient read depth	missing control alignments
ENCFF528VFN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTR	ChIP-seq	CL:0002252	epithelial cell of esophagus	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF015JHG, ENCFF114UPJ, ENCFF301DNK	789908	ENCODE Processing Pipeline	a0f666e95ff0fbc506d613ddf1c48a4a		https://www.encodeproject.org/files/ENCFF528VFN/@@download/ENCFF528VFN.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms		insufficient read depth	missing control alignments
ENCFF955YVT	bed narrowPeak	optimal idr thresholded peaks	ENCSR899BKM	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZNF687-human	DNA					False	2016-07-28	ENCODE				1, 2							ENCFF001TDO, ENCFF212CTS, ENCFF239TWK, ENCFF301EVY	372682	ENCODE Processing Pipeline	f2b2b0248778f4e9e3bc207e5f52722e		https://www.encodeproject.org/files/ENCFF955YVT/@@download/ENCFF955YVT.bed.gz	hg19			released				
ENCFF027VZK	bed narrowPeak	optimal idr thresholded peaks	ENCSR778UBR	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ARID3A-human	DNA					False	2017-01-31	ENCODE				5, 6							ENCFF001TDO, ENCFF644NTF, ENCFF716JVW, ENCFF877OQG	407625	ENCODE Processing Pipeline	145ef2f15c8164240d4f149dfa7e5c62		https://www.encodeproject.org/files/ENCFF027VZK/@@download/ENCFF027VZK.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF002CVG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFM	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2012-05-14	ENCODE												1544124	ENCODE Consortium Analysis Working Group	fd7d9e0db03cd8c7fcb3ab3a1da534d7		https://www.encodeproject.org/files/ENCFF002CVG/@@download/ENCFF002CVG.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF456GRS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFM	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF460AIN, ENCFF563ZYA, ENCFF604LSK	1353644	ENCODE Processing Pipeline	932e0d57da9a823c1dcdabd472985703		https://www.encodeproject.org/files/ENCFF456GRS/@@download/ENCFF456GRS.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF238MYM	bed narrowPeak	optimal idr thresholded peaks	ENCSR385AHH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF24-human	DNA					False	2016-04-21	ENCODE				2, 3							ENCFF001TDO, ENCFF186JNG, ENCFF420MBN, ENCFF980UAQ	280876	ENCODE Processing Pipeline	e3c5e27d52c123cb162294504181685d		https://www.encodeproject.org/files/ENCFF238MYM/@@download/ENCFF238MYM.bed.gz	hg19			released				
ENCFF002CWJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				RCOR1-human	DNA		see document	see document		False	2012-05-14	ENCODE												157869	ENCODE Consortium Analysis Working Group	00c00dfe8c61c384b777f1d95c60fc29		https://www.encodeproject.org/files/ENCFF002CWJ/@@download/ENCFF002CWJ.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF484CKD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				RCOR1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF477PXF, ENCFF620JKI, ENCFF959MXK	122282	ENCODE Processing Pipeline	d8f4094f757d447fef0084be8473dbd0		https://www.encodeproject.org/files/ENCFF484CKD/@@download/ENCFF484CKD.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CRE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECF	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				RFX5-human	DNA		see document	see document		False	2011-10-29	ENCODE												45540	ENCODE Consortium Analysis Working Group	00ef9b64eaa81ab9f224df53b1a1b882		https://www.encodeproject.org/files/ENCFF002CRE/@@download/ENCFF002CRE.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF447QXT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECF	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				RFX5-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF107RYF, ENCFF323MMZ, ENCFF577WFW	42015	ENCODE Processing Pipeline	2c4ecf570a93875da4f921f636a2e02f		https://www.encodeproject.org/files/ENCFF447QXT/@@download/ENCFF447QXT.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF759MVB	bed narrowPeak	optimal idr thresholded peaks	ENCSR513UQG	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				USF2-human	DNA					False	2017-06-15	ENCODE				1, 2							ENCFF001TDO, ENCFF343SNV, ENCFF362TZV, ENCFF882BWU	302978	ENCODE Processing Pipeline	5ef7807270fa0069761abc85d7009e7d		https://www.encodeproject.org/files/ENCFF759MVB/@@download/ENCFF759MVB.bed.gz	hg19			released	file validation error, low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption	mismatched file status		
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	
ENCFF002CPC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNM	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFYB-human	DNA		see document	see document		False	2011-10-29	ENCODE												315076	ENCODE Consortium Analysis Working Group	f8e79da909dc1a5e6eb85eb558620f7e		https://www.encodeproject.org/files/ENCFF002CPC/@@download/ENCFF002CPC.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF467NRS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNM	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFYB-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF350IOX, ENCFF655JXN, ENCFF911SLA	228205	ENCODE Processing Pipeline	b44b4a58544f06561d144f4cb4004cef		https://www.encodeproject.org/files/ENCFF467NRS/@@download/ENCFF467NRS.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity, inconsistent target of control experiment	biological replicates with identical biosample	insufficient read depth	
ENCFF002CGM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJC	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	dexamethasone	100 nM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE												216224	ENCODE Consortium Analysis Working Group	37fb51b44639c4bd578d332ce6d50cbc		https://www.encodeproject.org/files/ENCFF002CGM/@@download/ENCFF002CGM.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF585YYZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJC	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	dexamethasone	100 nM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF417EBM, ENCFF576VMW, ENCFF784YSB	206771	ENCODE Processing Pipeline	f00ca8d99f488bc57ab4e492958d8b45		https://www.encodeproject.org/files/ENCFF585YYZ/@@download/ENCFF585YYZ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment	biological replicates with identical biosample	insufficient read depth	
ENCFF002CTG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZK	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens	interferon gamma		30.0 minute	STAT1-human	DNA		see document	see document		False	2011-10-29	ENCODE												345134	ENCODE Consortium Analysis Working Group	dc02ec56d2dfe26638e95c008cf01f74		https://www.encodeproject.org/files/ENCFF002CTG/@@download/ENCFF002CTG.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CKT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJL	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE												152976	ENCODE Consortium Analysis Working Group	393b6967f22a5787bb74536e5846ef76		https://www.encodeproject.org/files/ENCFF002CKT/@@download/ENCFF002CKT.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF153JLK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJL	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF413BWR, ENCFF816UIF, ENCFF884SBE	82634	ENCODE Processing Pipeline	cc4c628548dadf6eff641ba4393fd6fd		https://www.encodeproject.org/files/ENCFF153JLK/@@download/ENCFF153JLK.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF628SBD	bed narrowPeak	optimal idr thresholded peaks	ENCSR663ZZZ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MNT-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF012KYI, ENCFF484KOR, ENCFF586OYO	622826	ENCODE Processing Pipeline	da9f6a09b033a047b60fe4152bb04d96		https://www.encodeproject.org/files/ENCFF628SBD/@@download/ENCFF628SBD.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF412CLP	bed narrowPeak	optimal idr thresholded peaks	ENCSR663ZZZ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MNT-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF463JPP, ENCFF528VWM, ENCFF531WHZ	548160	ENCODE Processing Pipeline	c81fa39d52f49f8bcf8dbf46d349160e		https://www.encodeproject.org/files/ENCFF412CLP/@@download/ENCFF412CLP.bed.gz	hg19			archived	mild to moderate bottlenecking			
ENCFF664ZGR	bed narrowPeak	optimal idr thresholded peaks	ENCSR742IDN	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NR2C1-human	DNA					False	2017-01-27	ENCODE				1, 2							ENCFF001TDO, ENCFF406JPU, ENCFF497RBU, ENCFF735EGA	286705	ENCODE Processing Pipeline	99866240a9404333b974b22bd1667736		https://www.encodeproject.org/files/ENCFF664ZGR/@@download/ENCFF664ZGR.bed.gz	hg19			released	file validation error, mild to moderate bottlenecking, antibody characterized with exemption	mismatched file status		
ENCFF002CGI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQR	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	bisphenol A	100 nM	1 hour	ESR1-human	DNA		see document	see document		False	2012-02-29	ENCODE												114872	ENCODE Consortium Analysis Working Group	24d6079f95b3d4eb84d699296b9a8a73		https://www.encodeproject.org/files/ENCFF002CGI/@@download/ENCFF002CGI.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF078ATU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQR	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	bisphenol A	100 nM	1 hour	ESR1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF887WVD, ENCFF904GCW, ENCFF986YIT	88917	ENCODE Processing Pipeline	c2d7cbb3ffcb246c8d1e914492ba66b3		https://www.encodeproject.org/files/ENCFF078ATU/@@download/ENCFF078ATU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF539NTA	bed narrowPeak	optimal idr thresholded peaks	ENCSR791AGT	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZNF24-human	DNA					False	2018-01-29	ENCODE				2, 3							ENCFF001TDO, ENCFF106XCP, ENCFF415JVE, ENCFF852WZC	129205	ENCODE Processing Pipeline	bf9b021386c9ca484566857247f651cb		https://www.encodeproject.org/files/ENCFF539NTA/@@download/ENCFF539NTA.bed.gz	hg19			released		experiment not submitted to GEO		
ENCFF810CEL	bed narrowPeak	optimal idr thresholded peaks	ENCSR514VYD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NR2F1-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF241KMD, ENCFF766CJW, ENCFF878DLA	755749	ENCODE Processing Pipeline	6f809f7b7c61d376d524f1789d35c3dd		https://www.encodeproject.org/files/ENCFF810CEL/@@download/ENCFF810CEL.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF808WQI	bed narrowPeak	optimal idr thresholded peaks	ENCSR029IBC	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ARNT-human	DNA					False	2017-01-31	ENCODE				1, 2							ENCFF001TDO, ENCFF078MLZ, ENCFF409LKX, ENCFF469FRK	24535	ENCODE Processing Pipeline	0abe74aad8be20ae1d2cdd97ab5fb152		https://www.encodeproject.org/files/ENCFF808WQI/@@download/ENCFF808WQI.bed.gz	hg19			released	borderline replicate concordance			
ENCFF002CTZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDQ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RCOR1-human	DNA		see document	see document		False	2012-05-14	ENCODE												141990	ENCODE Consortium Analysis Working Group	330d3aba535dd65dec36da67b6cf22f3		https://www.encodeproject.org/files/ENCFF002CTZ/@@download/ENCFF002CTZ.bed.gz	hg19			archived	low read length, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF706RIA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDQ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RCOR1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF119GVR, ENCFF531FFM, ENCFF827IXZ	101271	ENCODE Processing Pipeline	6d0a14b130b1f915375be8647eed081c		https://www.encodeproject.org/files/ENCFF706RIA/@@download/ENCFF706RIA.bed.gz	hg19			released	low read length, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF015YHT	bed narrowPeak	optimal idr thresholded peaks	ENCSR342THD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BCLAF1-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF082QVO, ENCFF222GJV, ENCFF308RFY	53338	ENCODE Processing Pipeline	a8cfce2cd4f95a90ebe3f1b1704ea0a7		https://www.encodeproject.org/files/ENCFF015YHT/@@download/ENCFF015YHT.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity, antibody characterized with exemption			
ENCFF273TYA	bed narrowPeak	optimal idr thresholded peaks	ENCSR249BHQ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF592-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF322TVZ, ENCFF363AAC, ENCFF537WLH	662184	ENCODE Processing Pipeline	c8ba92b030fc5472424b29f32f637dc7		https://www.encodeproject.org/files/ENCFF273TYA/@@download/ENCFF273TYA.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF258RWN	bed narrowPeak	optimal idr thresholded peaks	ENCSR359LOD	ChIP-seq	EFO:0002074	PC-3	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2017-10-19	ENCODE				1, 2							ENCFF001TDO, ENCFF646CMN, ENCFF752ZNY, ENCFF888CCA	1222113	ENCODE Processing Pipeline	56a529d11450f4ff7814d1699245ec5f		https://www.encodeproject.org/files/ENCFF258RWN/@@download/ENCFF258RWN.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF530FZL	bed narrowPeak	optimal idr thresholded peaks	ENCSR189VXS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GTF2F1-human	DNA					False	2018-01-30	ENCODE				1, 2							ENCFF001TDO, ENCFF007QMQ, ENCFF601KTD, ENCFF846SYJ	329728	ENCODE Processing Pipeline	777dde87a6c7533afb8183cab4ad171f		https://www.encodeproject.org/files/ENCFF530FZL/@@download/ENCFF530FZL.bed.gz	hg19			released		experiment not submitted to GEO	partially characterized antibody	
ENCFF240PYU	bed narrowPeak	optimal idr thresholded peaks	ENCSR906PEI	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				SP1-human	DNA					False	2017-05-18	ENCODE				1, 2							ENCFF001TDO, ENCFF333AFS, ENCFF713XLB, ENCFF730EIH	22954	ENCODE Processing Pipeline	94f3b9561dab2bf41b16692b087cccd7		https://www.encodeproject.org/files/ENCFF240PYU/@@download/ENCFF240PYU.bed.gz	hg19			released				
ENCFF653ZMJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR756ZKG	ChIP-seq	EFO:0006710	OCI-LY3	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2014-07-11	ENCODE				1, 2							ENCFF001TDO, ENCFF662BPG, ENCFF763SUY, ENCFF935FTJ	935049	ENCODE Processing Pipeline	39fc52436e5ef8b2ecdc550dde48f11d		https://www.encodeproject.org/files/ENCFF653ZMJ/@@download/ENCFF653ZMJ.bed.gz	hg19			released	low read length, low read depth, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF195ODE	bed narrowPeak	optimal idr thresholded peaks	ENCSR557RVF	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZHX1-human	DNA					False	2014-07-07	ENCODE				1, 3							ENCFF001TDO, ENCFF194DPB, ENCFF608GUA, ENCFF924ENQ	66009	ENCODE Processing Pipeline	a1e2f7cfe616efa0fd80d7f1210ba11f		https://www.encodeproject.org/files/ENCFF195ODE/@@download/ENCFF195ODE.bed.gz	hg19			released	low read length, low read depth			
ENCFF223KKR	bed narrowPeak	optimal idr thresholded peaks	ENCSR557RVF	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZHX1-human	DNA					False	2014-07-07	ENCODE				1, 3							ENCFF001TDO, ENCFF076QRM, ENCFF207BTX, ENCFF349DOV	56943	ENCODE Processing Pipeline	1fb0605c8d59b50eb5d2ab330e5e849b		https://www.encodeproject.org/files/ENCFF223KKR/@@download/ENCFF223KKR.bed.gz	hg19			archived	low read length, low read depth			
ENCFF769NCM	bed narrowPeak	optimal idr thresholded peaks	ENCSR046HGP	ChIP-seq	EFO:0002824	HCT116	cell line	Homo sapiens				EZH2-human	DNA					False	2017-11-18	ENCODE				1, 2							ENCFF001TDO, ENCFF014MFB, ENCFF782VWT, ENCFF905USH	13732	ENCODE Processing Pipeline	81fa11809db03d52ce78b886f3c317fc		https://www.encodeproject.org/files/ENCFF769NCM/@@download/ENCFF769NCM.bed.gz	hg19			released	mixed run types, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF002CPT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZU	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				USF2-human	DNA		see document	see document		False	2011-10-29	ENCODE												226110	ENCODE Consortium Analysis Working Group	7f1d056d70a7f7880977c4d9e1d0521e		https://www.encodeproject.org/files/ENCFF002CPT/@@download/ENCFF002CPT.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF372DRC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZU	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				USF2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF023RDZ, ENCFF485PHV, ENCFF548FHH	139589	ENCODE Processing Pipeline	c0e28ff4091658d0e94ba0a69b97e145		https://www.encodeproject.org/files/ENCFF372DRC/@@download/ENCFF372DRC.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF127GYQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR961PPA	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ATF2-human	DNA					False	2016-10-26	ENCODE				1, 2							ENCFF001TDO, ENCFF147CFU, ENCFF301WWU, ENCFF869LKG	340897	ENCODE Processing Pipeline	0ac1a8c909c53b83c0eab8dd64d2ff69		https://www.encodeproject.org/files/ENCFF127GYQ/@@download/ENCFF127GYQ.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity	experiment not submitted to GEO	poor library complexity, severe bottlenecking	
ENCFF161PGD	bed narrowPeak	optimal idr thresholded peaks	ENCSR112ALD	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CREB1-human	DNA					False	2017-11-14	ENCODE				2, 3							ENCFF001TDO, ENCFF365ROK, ENCFF708DXF, ENCFF732KKY	753611	ENCODE Processing Pipeline	8cffc6ccd34129dc10ef7665da0c304d		https://www.encodeproject.org/files/ENCFF161PGD/@@download/ENCFF161PGD.bed.gz	hg19			released		experiment not submitted to GEO		
ENCFF002CPV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUM	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-10-29	ENCODE												54998	ENCODE Consortium Analysis Working Group	fb00e0287a7d814462df012a01632819		https://www.encodeproject.org/files/ENCFF002CPV/@@download/ENCFF002CPV.bed.gz	hg19			archived		missing derived_from	control insufficient read depth, insufficient read depth, insufficient read length	
ENCFF968JVX	bed narrowPeak	optimal idr thresholded peaks	ENCSR395HWC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				IKZF1-human	DNA					False	2016-04-22	ENCODE				1, 2							ENCFF001TDO, ENCFF038VEX, ENCFF669ACI, ENCFF723ESB	853540	ENCODE Processing Pipeline	684bdc0057a6241a64f889a8afb4cd56		https://www.encodeproject.org/files/ENCFF968JVX/@@download/ENCFF968JVX.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF997AAW	bed narrowPeak	optimal idr thresholded peaks	ENCSR529JYA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				HCFC1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF103LIH, ENCFF708LWT, ENCFF738IWJ	112216	ENCODE Processing Pipeline	53a70ccc5c4326fe942b548aae05eb6b		https://www.encodeproject.org/files/ENCFF997AAW/@@download/ENCFF997AAW.bed.gz	hg19			released	low read length, low read depth			
ENCFF712YRN	bed narrowPeak	optimal idr thresholded peaks	ENCSR529JYA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				HCFC1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF051FVN, ENCFF676HIP, ENCFF766CME	100682	ENCODE Processing Pipeline	f8023ab6ff76251a27263977e1fd3d00		https://www.encodeproject.org/files/ENCFF712YRN/@@download/ENCFF712YRN.bed.gz	hg19			archived	low read length, low read depth			
ENCFF002CYY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DON	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	afimoxifene	1.0 μM	36.0 hour	FOS-human	DNA		see document	see document		False	2012-05-14	ENCODE												1357216	ENCODE Consortium Analysis Working Group	948a3af044b38668cd14d1fa16954823		https://www.encodeproject.org/files/ENCFF002CYY/@@download/ENCFF002CYY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, duplicate lane review, missing derived_from		missing control alignments
ENCFF988HJD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DON	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	afimoxifene	1.0 μM	36.0 hour	FOS-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF215QRX, ENCFF494HZF, ENCFF639ZSQ	1252109	ENCODE Processing Pipeline	bddbf848bde7839ac92b90dde93d3edf		https://www.encodeproject.org/files/ENCFF988HJD/@@download/ENCFF988HJD.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, duplicate lane review		missing control alignments
ENCFF544CYG	bed narrowPeak	optimal idr thresholded peaks	ENCSR801SWX	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				TARDBP-human	DNA					False	2017-02-01	ENCODE				1, 2							ENCFF001TDO, ENCFF319FAG, ENCFF411PFB, ENCFF480TTE	222654	ENCODE Processing Pipeline	00341568066ea40847437d46812194c5		https://www.encodeproject.org/files/ENCFF544CYG/@@download/ENCFF544CYG.bed.gz	hg19			released				
ENCFF974OIC	bed narrowPeak	optimal idr thresholded peaks	ENCSR407BEZ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZHX2-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF236YIV, ENCFF392FYA, ENCFF640NJO	181311	ENCODE Processing Pipeline	79e70a2005e90b9615aa7013c7effab6		https://www.encodeproject.org/files/ENCFF974OIC/@@download/ENCFF974OIC.bed.gz	hg19			released	low read depth, antibody characterized with exemption			
ENCFF733UTZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR412QBS	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TARDBP-human	DNA					False	2016-04-22	ENCODE				1, 2							ENCFF001TDO, ENCFF016QUV, ENCFF187SWR, ENCFF354CAT	438542	ENCODE Processing Pipeline	857832d61646de57b072948b6b33b410		https://www.encodeproject.org/files/ENCFF733UTZ/@@download/ENCFF733UTZ.bed.gz	hg19			released				
ENCFF002DCB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DQD	ChIP-seq	EFO:0005725	BE2C	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001GYW, ENCFF001GZC	1096428	ENCODE Consortium Analysis Working Group	200533e7cc808f8521c4b2cbdc0ac122		https://www.encodeproject.org/files/ENCFF002DCB/@@download/ENCFF002DCB.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth			
ENCFF965BBC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DQD	ChIP-seq	EFO:0005725	BE2C	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF082FUL, ENCFF535IOO, ENCFF863FFV	905006	ENCODE Processing Pipeline	b391745a29366760d1126d5c58fd8512		https://www.encodeproject.org/files/ENCFF965BBC/@@download/ENCFF965BBC.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth			
ENCFF002DBJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMS	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens	17β-estradiol	100 nM	45 minute	CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												1480247	ENCODE Consortium Analysis Working Group	c7819cf56ead7511c33aaac594c6aa44		https://www.encodeproject.org/files/ENCFF002DBJ/@@download/ENCFF002DBJ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking	missing derived_from, biological replicates with identical biosample		missing control alignments
ENCFF136BEY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMS	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens	17β-estradiol	100 nM	45 minute	CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF007EZA, ENCFF217YFS, ENCFF438DXI	1074391	ENCODE Processing Pipeline	f0937e8a61eef201006009516fe71acb		https://www.encodeproject.org/files/ENCFF136BEY/@@download/ENCFF136BEY.bed.gz	hg19			released	low read length, mild to moderate bottlenecking	biological replicates with identical biosample		missing control alignments
ENCFF527ALV	bed narrowPeak	optimal idr thresholded peaks	ENCSR391KQC	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MTA3-human	DNA					False	2016-06-23	ENCODE				1, 2							ENCFF001TDO, ENCFF257ALC, ENCFF402AKR, ENCFF434NPI	78206	ENCODE Processing Pipeline	cb10f87e27dba429bc70867de4e6c85a		https://www.encodeproject.org/files/ENCFF527ALV/@@download/ENCFF527ALV.bed.gz	hg19			released	borderline replicate concordance			
ENCFF116RLU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000HPG	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				SMC3-human	DNA					False	2016-10-26	ENCODE				1, 3							ENCFF001TDO, ENCFF551KOG, ENCFF603HVK, ENCFF925XIR	561934	ENCODE Processing Pipeline	df3a18ae7973dc03e024e724ccaf3c13		https://www.encodeproject.org/files/ENCFF116RLU/@@download/ENCFF116RLU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption			
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			
ENCFF002CSK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVI	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				ELK4-human	DNA		see document	see document		False	2011-10-29	ENCODE												135202	ENCODE Consortium Analysis Working Group	5b840f06ad48a31dffba2764ce3f40ec		https://www.encodeproject.org/files/ENCFF002CSK/@@download/ENCFF002CSK.bed.gz	hg19			released	inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF397XTF	bed narrowPeak	optimal idr thresholded peaks	ENCSR318LVG	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZBTB40-human	DNA					False	2016-09-20	ENCODE				1, 2							ENCFF001TDO, ENCFF086HCP, ENCFF511ZHC, ENCFF685HYH	275891	ENCODE Processing Pipeline	a71767d139b97728bef6593298a3d875		https://www.encodeproject.org/files/ENCFF397XTF/@@download/ENCFF397XTF.bed.gz	hg19			released	file validation error, mild to moderate bottlenecking	mismatched file status		
ENCFF208TRU	bed narrowPeak	optimal idr thresholded peaks	ENCSR514VAY	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				HCFC1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF251KCB, ENCFF567MQM, ENCFF894EBL	167235	ENCODE Processing Pipeline	b6b7a380d838641fb514a9c1fd6b89e3		https://www.encodeproject.org/files/ENCFF208TRU/@@download/ENCFF208TRU.bed.gz	hg19			released	low read length			
ENCFF895YBG	bed narrowPeak	optimal idr thresholded peaks	ENCSR514VAY	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				HCFC1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF620ZVU, ENCFF750GSF, ENCFF807ESQ	144516	ENCODE Processing Pipeline	c72d579bd05ba4d5ba639a7d22b58cb4		https://www.encodeproject.org/files/ENCFF895YBG/@@download/ENCFF895YBG.bed.gz	hg19			archived	low read length			
ENCFF054LVE	bed narrowPeak	optimal idr thresholded peaks	ENCSR946ZLI	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				eGFP-KLF13-human	DNA				formaldehyde	False	2017-11-30	ENCODE				1, 2							ENCFF001TDO, ENCFF468YQB, ENCFF495ICA, ENCFF742QVY	181804	ENCODE Processing Pipeline	5bc33b794fbae98252426d8ca90bfad6		https://www.encodeproject.org/files/ENCFF054LVE/@@download/ENCFF054LVE.bed.gz	hg19			released	low read depth, missing genetic modification characterization	experiment not submitted to GEO		missing control alignments
ENCFF683KBO	bed narrowPeak	optimal idr thresholded peaks	ENCSR066EBK	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOXA2-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF144UTI, ENCFF516CRP, ENCFF532LNM	1245223	ENCODE Processing Pipeline	cc14e80a87319acc940932944771f108		https://www.encodeproject.org/files/ENCFF683KBO/@@download/ENCFF683KBO.bed.gz	hg19			released				
ENCFF502ZTC	bed narrowPeak	optimal idr thresholded peaks	ENCSR047BUZ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ATF2-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF474JRH, ENCFF731IFM, ENCFF750HPK	1135631	ENCODE Processing Pipeline	a6a22b8d5cf6d58a3a27d3b0952f7874		https://www.encodeproject.org/files/ENCFF502ZTC/@@download/ENCFF502ZTC.bed.gz	hg19			released	borderline replicate concordance			
ENCFF002CIL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKJ	ChIP-seq	EFO:0002785	GM12891	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE												280169	ENCODE Consortium Analysis Working Group	35a74f652ae357485e259fe640f840b9		https://www.encodeproject.org/files/ENCFF002CIL/@@download/ENCFF002CIL.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF081JNO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKJ	ChIP-seq	EFO:0002785	GM12891	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF505NSP, ENCFF519AMH, ENCFF994XKT	295188	ENCODE Processing Pipeline	abed55987806d18a1d2d5f121536c7ac		https://www.encodeproject.org/files/ENCFF081JNO/@@download/ENCFF081JNO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF126PJF	bed narrowPeak	optimal idr thresholded peaks	ENCSR155VDK	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZBTB11-human	DNA					False	2016-04-25	ENCODE				1, 2							ENCFF001TDO, ENCFF224PZN, ENCFF321JQC, ENCFF627DPA	42359	ENCODE Processing Pipeline	1cbb892e070ba237950c699124a9f18a		https://www.encodeproject.org/files/ENCFF126PJF/@@download/ENCFF126PJF.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption			
ENCFF708OJJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR887MXT	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				ZHX1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF436EXX, ENCFF695CJR, ENCFF698USR	60464	ENCODE Processing Pipeline	1da1a1c1a4cddbaa11dbd4fb1ae9a963		https://www.encodeproject.org/files/ENCFF708OJJ/@@download/ENCFF708OJJ.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth			
ENCFF096MYK	bed narrowPeak	optimal idr thresholded peaks	ENCSR887MXT	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				ZHX1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF059MAJ, ENCFF566ZXA, ENCFF738BNS	53021	ENCODE Processing Pipeline	9347d93c203883defa053592284c995e		https://www.encodeproject.org/files/ENCFF096MYK/@@download/ENCFF096MYK.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth			
ENCFF002CJN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIV	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				SRF-human	DNA		see document	see document		False	2011-07-18	ENCODE												103006	ENCODE Consortium Analysis Working Group	a5858b2044edbdf6772f3c51c1a42214		https://www.encodeproject.org/files/ENCFF002CJN/@@download/ENCFF002CJN.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF725LDD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIV	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				SRF-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF145RHD, ENCFF471LWP, ENCFF605EQP	99200	ENCODE Processing Pipeline	9650ba5ad4127ecca39d1e2d2efc50e9		https://www.encodeproject.org/files/ENCFF725LDD/@@download/ENCFF725LDD.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF086LMU	bed narrowPeak	optimal idr thresholded peaks	ENCSR771GTF	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				SUZ12-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF186LIR, ENCFF381HBX, ENCFF558TFD	37524	ENCODE Processing Pipeline	749996d8fe43925ce133918d367e2c7b		https://www.encodeproject.org/files/ENCFF086LMU/@@download/ENCFF086LMU.bed.gz	hg19			released	low read length, low read depth			
ENCFF473GYY	bed narrowPeak	optimal idr thresholded peaks	ENCSR771GTF	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				SUZ12-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF098TYI, ENCFF198VHZ, ENCFF514KJW	35910	ENCODE Processing Pipeline	f030589351c1aeb6a6cfa232f7e10259		https://www.encodeproject.org/files/ENCFF473GYY/@@download/ENCFF473GYY.bed.gz	hg19			archived	low read length, low read depth			
ENCFF712LMP	bed narrowPeak	optimal idr thresholded peaks	ENCSR707IUN	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				NFE2L2-human	DNA					False	2016-08-31	ENCODE				1, 2							ENCFF001TDO, ENCFF249ESZ, ENCFF445YDK, ENCFF737CTQ	138212	ENCODE Processing Pipeline	71a63bdc531b0c8197e1fc6c7d385ab9		https://www.encodeproject.org/files/ENCFF712LMP/@@download/ENCFF712LMP.bed.gz	hg19			released	low read length, low read depth			
ENCFF266KSD	bed narrowPeak	optimal idr thresholded peaks	ENCSR752NDX	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZNF282-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF165DIG, ENCFF313GGY, ENCFF719GJP	40174	ENCODE Processing Pipeline	166fa526550204b365512e1d5ada00c2		https://www.encodeproject.org/files/ENCFF266KSD/@@download/ENCFF266KSD.bed.gz	hg19			released	borderline replicate concordance	experiment not submitted to GEO	partially characterized antibody	
ENCFF002COQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZN	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-10-29	ENCODE												1184123	ENCODE Consortium Analysis Working Group	bc28241ebe7f2e85f79563568ea724dc		https://www.encodeproject.org/files/ENCFF002COQ/@@download/ENCFF002COQ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	control insufficient read depth, insufficient read depth	
ENCFF710VEH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZN	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF256QBB, ENCFF307KRD, ENCFF833GQU	702399	ENCODE Processing Pipeline	cc13297e7415d8e276f3516031835828		https://www.encodeproject.org/files/ENCFF710VEH/@@download/ENCFF710VEH.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	control insufficient read depth, insufficient read depth	
ENCFF549GMO	bed narrowPeak	optimal idr thresholded peaks	ENCSR223MLH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BRCA1-human	DNA					False	2017-05-18	ENCODE				1, 2							ENCFF001TDO, ENCFF248TTW, ENCFF302RJE, ENCFF507JPU	18922	ENCODE Processing Pipeline	df978590cd462b0053dd3bfc64f17142		https://www.encodeproject.org/files/ENCFF549GMO/@@download/ENCFF549GMO.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF261XPP	bed narrowPeak	optimal idr thresholded peaks	ENCSR033VAZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TARDBP-human	DNA					False	2016-04-22	ENCODE				2, 3							ENCFF001TDO, ENCFF506ZBZ, ENCFF612BYB, ENCFF654INX	242184	ENCODE Processing Pipeline	ac65d03826f780526495ec873aa0d673		https://www.encodeproject.org/files/ENCFF261XPP/@@download/ENCFF261XPP.bed.gz	hg19			released				
ENCFF603MCO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BTF	ChIP-seq	EFO:0002793	HL-60	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2012-09-10	ENCODE				1, 2							ENCFF001TDO, ENCFF152FPH, ENCFF427PNP, ENCFF955CMQ	250253	ENCODE Processing Pipeline	bd65a9b594a044fa6e72d0baca077e59		https://www.encodeproject.org/files/ENCFF603MCO/@@download/ENCFF603MCO.bed.gz	hg19			released	low read depth	biological replicates with identical biosample	insufficient replicate concordance	
ENCFF002DBV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPG	ChIP-seq	NTR:0000478	AG04449	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001GVW, ENCFF001GWC	1114889	ENCODE Consortium Analysis Working Group	bbcd22b3a0bf72a88a2c3406a71386c6		https://www.encodeproject.org/files/ENCFF002DBV/@@download/ENCFF002DBV.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity	NTR biosample	insufficient read depth	missing control alignments
ENCFF970AVM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPG	ChIP-seq	NTR:0000478	AG04449	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF252SGK, ENCFF671VPQ, ENCFF738FKM	774670	ENCODE Processing Pipeline	f04834aa1a9828e037a2d125449602be		https://www.encodeproject.org/files/ENCFF970AVM/@@download/ENCFF970AVM.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity	NTR biosample	insufficient read depth	missing control alignments
ENCFF925MHB	bed narrowPeak	optimal idr thresholded peaks	ENCSR618GDK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CEBPZ-human	DNA					False	2014-07-07	ENCODE				1, 4							ENCFF001TDO, ENCFF355FJN, ENCFF830WTR, ENCFF895ZCE	24634	ENCODE Processing Pipeline	883e9c0b1e68c25bad97a58920ac3f58		https://www.encodeproject.org/files/ENCFF925MHB/@@download/ENCFF925MHB.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance			
ENCFF392TKK	bed narrowPeak	optimal idr thresholded peaks	ENCSR618GDK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CEBPZ-human	DNA					False	2014-07-07	ENCODE				1, 4							ENCFF001TDO, ENCFF196NEV, ENCFF603ABN, ENCFF671UIB	21050	ENCODE Processing Pipeline	c3bda9e03d77f48fd2712a1af5c26a09		https://www.encodeproject.org/files/ENCFF392TKK/@@download/ENCFF392TKK.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance			
ENCFF765BRD	bed narrowPeak	optimal idr thresholded peaks	ENCSR987GXT	ChIP-seq	EFO:0007950	GM23338	induced pluripotent stem cell line	Homo sapiens				CTCF-human	DNA					False	2017-10-19	ENCODE				1, 2							ENCFF001TDO, ENCFF214JLG, ENCFF236MQY, ENCFF651CJJ	1262132	ENCODE Processing Pipeline	5910eb61c8a1c3124666845d4245da27		https://www.encodeproject.org/files/ENCFF765BRD/@@download/ENCFF765BRD.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF545SXB	bed narrowPeak	optimal idr thresholded peaks	ENCSR778QLY	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				ELF4-human	DNA					False	2017-01-31	ENCODE				1, 2							ENCFF001TDO, ENCFF280LRQ, ENCFF480NXP, ENCFF802MVF	118104	ENCODE Processing Pipeline	2a018e52c7336d6fcce93715a481d388		https://www.encodeproject.org/files/ENCFF545SXB/@@download/ENCFF545SXB.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption			
ENCFF002CSI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVK	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				E2F6-human	DNA		see document	see document		False	2011-10-29	ENCODE												117604	ENCODE Consortium Analysis Working Group	768813aca230dfe904b00a36c6cffdcd		https://www.encodeproject.org/files/ENCFF002CSI/@@download/ENCFF002CSI.bed.gz	hg19			released	inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF030BPR	bed narrowPeak	optimal idr thresholded peaks	ENCSR857PBV	ChIP-seq	EFO:0002095	22Rv1	cell line	Homo sapiens				CTCF-human	DNA					False	2017-06-15	ENCODE				1, 2							ENCFF001TDO, ENCFF144QCV, ENCFF615UXP, ENCFF887CGM	1588398	ENCODE Processing Pipeline	5f43fb71d39e6aca7ccb6aef19451ff0		https://www.encodeproject.org/files/ENCFF030BPR/@@download/ENCFF030BPR.bed.gz	hg19			released	mild to moderate bottlenecking	NTR biosample		
ENCFF510UBQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR867WPH	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				REST-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF034ALK, ENCFF501HAG, ENCFF783JKF	638782	ENCODE Processing Pipeline	047d4008e34b135f96b20243b80c4441		https://www.encodeproject.org/files/ENCFF510UBQ/@@download/ENCFF510UBQ.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF417LEJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR237VLT	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZBTB40-human	DNA					False	2016-08-01	ENCODE				1, 2							ENCFF001TDO, ENCFF361LXO, ENCFF707CDO, ENCFF727WJU	563762	ENCODE Processing Pipeline	ee5c6e2a9253142ea4ec418a2668994d		https://www.encodeproject.org/files/ENCFF417LEJ/@@download/ENCFF417LEJ.bed.gz	hg19			released				
ENCFF932EVL	bed narrowPeak	optimal idr thresholded peaks	ENCSR831EIW	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				FOXM1-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF141MCC, ENCFF618BDU, ENCFF644PFR	102472	ENCODE Processing Pipeline	8324015652ce03e8a0be6cd9278a3f2a		https://www.encodeproject.org/files/ENCFF932EVL/@@download/ENCFF932EVL.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF002CLB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJX	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				SP1-human	DNA		see document	see document		False	2011-07-18	ENCODE												623335	ENCODE Consortium Analysis Working Group	376cdc1b9880f92085b220e94c996ae8		https://www.encodeproject.org/files/ENCFF002CLB/@@download/ENCFF002CLB.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	missing derived_from, biological replicates with identical biosample	insufficient replicate concordance	missing control alignments
ENCFF741WKY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJX	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				SP1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF121SXP, ENCFF420CVJ, ENCFF740QPT	593220	ENCODE Processing Pipeline	637ee87b99d565855508c0e4d6d3c2d8		https://www.encodeproject.org/files/ENCFF741WKY/@@download/ENCFF741WKY.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient replicate concordance	missing control alignments
ENCFF002CIK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIM	ChIP-seq	EFO:0002785	GM12891	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												303968	ENCODE Consortium Analysis Working Group	7ab7ce6c64786d76a1fbf4222d0258a5		https://www.encodeproject.org/files/ENCFF002CIK/@@download/ENCFF002CIK.bed.gz	hg19			archived	control low read depth, low read length, low read depth	biological replicates with identical biosample, missing derived_from		missing control alignments
ENCFF195IKR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIM	ChIP-seq	EFO:0002785	GM12891	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF257RXE, ENCFF893QMD, ENCFF994IJB	269898	ENCODE Processing Pipeline	ff7eec22f7f6ea26a65ebf19c5976fda		https://www.encodeproject.org/files/ENCFF195IKR/@@download/ENCFF195IKR.bed.gz	hg19			released	control low read depth, low read length, low read depth	biological replicates with identical biosample		missing control alignments
ENCFF002CNY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMX	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	GATA3-human	DNA		see document	see document		False	2011-07-18	ENCODE												712565	ENCODE Consortium Analysis Working Group	7e078e18057c41e9e2ed711465c152ab		https://www.encodeproject.org/files/ENCFF002CNY/@@download/ENCFF002CNY.bed.gz	hg19			archived	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF058XAD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMX	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	GATA3-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF368ICR, ENCFF370FVF, ENCFF591LXN	775431	ENCODE Processing Pipeline	0698eb75edf612f795a48307b318d11f		https://www.encodeproject.org/files/ENCFF058XAD/@@download/ENCFF058XAD.bed.gz	hg19			released	low read length	biological replicates with identical biosample		
ENCFF002CKC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BID	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				BHLHE40-human	DNA		see document	see document		False	2011-07-18	ENCODE												72384	ENCODE Consortium Analysis Working Group	2919a05ba376b3d50530b2800affd7b1		https://www.encodeproject.org/files/ENCFF002CKC/@@download/ENCFF002CKC.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	missing derived_from, biological replicates with identical biosample	insufficient read depth, poor library complexity, severe bottlenecking	missing control alignments
ENCFF028BDC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BID	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				BHLHE40-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF215GXO, ENCFF333ZRM, ENCFF626BVG	61955	ENCODE Processing Pipeline	a5acbe34ad3e7ba0f7923a00120943fc		https://www.encodeproject.org/files/ENCFF028BDC/@@download/ENCFF028BDC.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth, poor library complexity, severe bottlenecking	missing control alignments
ENCFF002CJG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLD	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-07-18	ENCODE												1681653	ENCODE Consortium Analysis Working Group	5430340eb9fc27a77685a961af585d94		https://www.encodeproject.org/files/ENCFF002CJG/@@download/ENCFF002CJG.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	biological replicates with identical biosample, missing derived_from		missing control alignments
ENCFF824FIL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLD	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF216OCU, ENCFF428PSB, ENCFF474BFW	1187834	ENCODE Processing Pipeline	23e386dd5736b37be6fee217c9b4406b		https://www.encodeproject.org/files/ENCFF824FIL/@@download/ENCFF824FIL.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	biological replicates with identical biosample		missing control alignments
ENCFF303TVZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZX	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				IRF3-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF271PVK, ENCFF434CQV, ENCFF678BIU	36479	ENCODE Processing Pipeline	814f0bb635cc8a5600eb2018921ab663		https://www.encodeproject.org/files/ENCFF303TVZ/@@download/ENCFF303TVZ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF784FIE	bed narrowPeak	optimal idr thresholded peaks	ENCSR325DER	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NR3C1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF037BJD, ENCFF261TNJ, ENCFF793DLG	46890	ENCODE Processing Pipeline	27585931a99c4d1c463cb076f662bc3b		https://www.encodeproject.org/files/ENCFF784FIE/@@download/ENCFF784FIE.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity	experiment not submitted to GEO	partially characterized antibody	
ENCFF184RRU	bed narrowPeak	optimal idr thresholded peaks	ENCSR670FDA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFATC3-human	DNA					False	2017-09-29	ENCODE				1, 2							ENCFF001TDO, ENCFF324WHA, ENCFF620EBO, ENCFF951XWI	133041	ENCODE Processing Pipeline	3ae96e984e743858b619938ccc58a435		https://www.encodeproject.org/files/ENCFF184RRU/@@download/ENCFF184RRU.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF558JBX	bed narrowPeak	optimal idr thresholded peaks	ENCSR024CNP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				EGR1-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF255VCC, ENCFF637AOG, ENCFF782FAJ	605717	ENCODE Processing Pipeline	8149a5a796a465fc5a678edf965522ce		https://www.encodeproject.org/files/ENCFF558JBX/@@download/ENCFF558JBX.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF002CIZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKP	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-07-18	ENCODE												164218	ENCODE Consortium Analysis Working Group	1c0e5f009a39b207e74f525bcfd58e35		https://www.encodeproject.org/files/ENCFF002CIZ/@@download/ENCFF002CIZ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent platforms	missing derived_from, biological replicates with identical biosample	poor library complexity, severe bottlenecking	
ENCFF073PCP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKP	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF041GFP, ENCFF686SJD, ENCFF905FMJ	258230	ENCODE Processing Pipeline	009fcd86b3b4d6d1e42350f2b7f87273		https://www.encodeproject.org/files/ENCFF073PCP/@@download/ENCFF073PCP.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent platforms	biological replicates with identical biosample	poor library complexity, severe bottlenecking	
ENCFF002CTN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECW	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				USF2-human	DNA		see document	see document		False	2011-10-29	ENCODE												311276	ENCODE Consortium Analysis Working Group	333a8fbc667b992f645fbede4a5501c8		https://www.encodeproject.org/files/ENCFF002CTN/@@download/ENCFF002CTN.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF350YXB	bed narrowPeak	optimal idr thresholded peaks	ENCSR914NEI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MTA3-human	DNA				formaldehyde	False	2017-06-07	ENCODE				2, 3							ENCFF001TDO, ENCFF326WKP, ENCFF883SHN, ENCFF976RBY	528070	ENCODE Processing Pipeline	3ea3ef0e96deacc4e08f7eb62dbcdac3		https://www.encodeproject.org/files/ENCFF350YXB/@@download/ENCFF350YXB.bed.gz	hg19			released	mild to moderate bottlenecking			
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			
ENCFF596OJV	bed narrowPeak	optimal idr thresholded peaks	ENCSR126YEB	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				FOXA1-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF017WRM, ENCFF031CJZ, ENCFF565ZVL	661291	ENCODE Processing Pipeline	54fbe703b1a67e989d62a1761ae130d5		https://www.encodeproject.org/files/ENCFF596OJV/@@download/ENCFF596OJV.bed.gz	hg19			released	low read depth			
ENCFF641RNZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR197WGI	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				NFE2L2-human	DNA					False	2016-09-01	ENCODE				2, 3							ENCFF001TDO, ENCFF777LPB, ENCFF917EWZ, ENCFF950ARZ	275301	ENCODE Processing Pipeline	23071fd9061c37180996a41abc7793ae		https://www.encodeproject.org/files/ENCFF641RNZ/@@download/ENCFF641RNZ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth			
ENCFF514OOQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR218GSN	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				ZFX-human	DNA					False	2017-07-21	ENCODE				1, 2							ENCFF001TDO, ENCFF266JIG, ENCFF694AUF, ENCFF762KYA	438040	ENCODE Processing Pipeline	b1370f2dae4b9b958efb4b081343162b		https://www.encodeproject.org/files/ENCFF514OOQ/@@download/ENCFF514OOQ.bed.gz	hg19			released	antibody characterized with exemption	NTR biosample		
ENCFF782KFG	bed narrowPeak	optimal idr thresholded peaks	ENCSR402IDP	ChIP-seq	EFO:0005724	MM.1S	cell line	Homo sapiens				CTCF-human	DNA					False	2016-08-11	ENCODE				1, 2							ENCFF001TDO, ENCFF507RFD, ENCFF691NVX, ENCFF974RFW	751199	ENCODE Processing Pipeline	0c81256878b5c45a50617e772db57427		https://www.encodeproject.org/files/ENCFF782KFG/@@download/ENCFF782KFG.bed.gz	hg19			released	low read length, antibody characterized with exemption, mixed read lengths	NTR biosample		
ENCFF521CRG	bed narrowPeak	optimal idr thresholded peaks	ENCSR776CYN	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZFP36-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF233END, ENCFF688ELV, ENCFF734ODE	361453	ENCODE Processing Pipeline	8905c7dc4614bdddbe70d643dae0973b		https://www.encodeproject.org/files/ENCFF521CRG/@@download/ENCFF521CRG.bed.gz	hg19			released	low read length, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF706LIT	bed narrowPeak	optimal idr thresholded peaks	ENCSR107RHZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				YBX1-human	DNA					False	2016-07-28	ENCODE				1, 2							ENCFF001TDO, ENCFF609DTK, ENCFF669CKL, ENCFF749VLH	26921	ENCODE Processing Pipeline	1fde054e4ffdaa0d943623283ebc001a		https://www.encodeproject.org/files/ENCFF706LIT/@@download/ENCFF706LIT.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF163VUK	bed narrowPeak	optimal idr thresholded peaks	ENCSR882ERE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZKSCAN1-human	DNA					False	2016-03-02	ENCODE				1, 2							ENCFF001TDO, ENCFF040DGA, ENCFF511MUZ, ENCFF656CUX	217692	ENCODE Processing Pipeline	c743b22b355085c49a0ee67adfa8f5f2		https://www.encodeproject.org/files/ENCFF163VUK/@@download/ENCFF163VUK.bed.gz	hg19			released	low read length, low read depth			
ENCFF549KOD	bed narrowPeak	optimal idr thresholded peaks	ENCSR547LKC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GATAD2B-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF198CPZ, ENCFF418WIA, ENCFF849HOO	250332	ENCODE Processing Pipeline	4c6d59eb2d9fee9bb959881542988713		https://www.encodeproject.org/files/ENCFF549KOD/@@download/ENCFF549KOD.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF068DLY	bed narrowPeak	optimal idr thresholded peaks	ENCSR702GMW	ChIP-seq	EFO:0002847	PC-9	cell line	Homo sapiens				EZH2phosphoT487-human	DNA					False	2018-02-06	ENCODE				1, 2							ENCFF001TDO, ENCFF432ZMO, ENCFF555PRT, ENCFF614KPG	89185	ENCODE Processing Pipeline	9a66417c7c7a963da54869ff4eff870e		https://www.encodeproject.org/files/ENCFF068DLY/@@download/ENCFF068DLY.bed.gz	hg19			released	low read depth, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF944GZI	bed narrowPeak	optimal idr thresholded peaks	ENCSR669NFS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ARNT-human	DNA					False	2018-01-26	ENCODE				3, 4							ENCFF001TDO, ENCFF286UPH, ENCFF333QJD, ENCFF968TKP	115274	ENCODE Processing Pipeline	047a545f5de7e170d1e06e9dfe3ee10a		https://www.encodeproject.org/files/ENCFF944GZI/@@download/ENCFF944GZI.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF392MUM	bed narrowPeak	optimal idr thresholded peaks	ENCSR502OEK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ELF1-human	DNA					False	2016-07-28	ENCODE				1, 2							ENCFF001TDO, ENCFF725PEY, ENCFF813JVU, ENCFF883ZAE	271048	ENCODE Processing Pipeline	feec5c83ee0073bfeead5b1f269e553f		https://www.encodeproject.org/files/ENCFF392MUM/@@download/ENCFF392MUM.bed.gz	hg19			released	low read depth, antibody characterized with exemption			
ENCFF523NXP	bed narrowPeak	optimal idr thresholded peaks	ENCSR237TFX	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				CTBP1-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF031LVS, ENCFF094ESY, ENCFF851UVY	160167	ENCODE Processing Pipeline	bc4c1b6642b6d7699879f3ae0fdc01fe		https://www.encodeproject.org/files/ENCFF523NXP/@@download/ENCFF523NXP.bed.gz	hg19			released	borderline replicate concordance			
ENCFF146XEP	bed narrowPeak	optimal idr thresholded peaks	ENCSR094WHO	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				FOXA1-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF288DTP, ENCFF329TNA, ENCFF893RQA	25374	ENCODE Processing Pipeline	adde07d94f68bcd1be893e272c83d9a1		https://www.encodeproject.org/files/ENCFF146XEP/@@download/ENCFF146XEP.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF298UPI	bed narrowPeak	optimal idr thresholded peaks	ENCSR459FTB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				UBTF-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF191TQD, ENCFF688WOB, ENCFF878ZPT	28532	ENCODE Processing Pipeline	c82f947c982c796763283fc21f4ad097		https://www.encodeproject.org/files/ENCFF298UPI/@@download/ENCFF298UPI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance			
ENCFF745TNJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR459FTB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				UBTF-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF830BYO, ENCFF882ZXB, ENCFF911LYM	21700	ENCODE Processing Pipeline	39ff0a17cad317e0bf09d204c549746b		https://www.encodeproject.org/files/ENCFF745TNJ/@@download/ENCFF745TNJ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance			
ENCFF315VQM	bed narrowPeak	optimal idr thresholded peaks	ENCSR897MYK	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				SREBF1-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF290WHA, ENCFF491WEZ, ENCFF926IPE	68730	ENCODE Processing Pipeline	52c030c2d14a1c8c5aff2675d1e82050		https://www.encodeproject.org/files/ENCFF315VQM/@@download/ENCFF315VQM.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption			
ENCFF867MDW	bed narrowPeak	optimal idr thresholded peaks	ENCSR897MYK	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				SREBF1-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF106NTS, ENCFF110VMS, ENCFF705UHV	56334	ENCODE Processing Pipeline	c3b9d02af760fd071247afc5a6bbaae8		https://www.encodeproject.org/files/ENCFF867MDW/@@download/ENCFF867MDW.bed.gz	hg19			archived	borderline replicate concordance, antibody characterized with exemption			
ENCFF567GSX	bed narrowPeak	optimal idr thresholded peaks	ENCSR512NLO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MNT-human	DNA					False	2017-05-17	ENCODE				1, 2							ENCFF001TDO, ENCFF595GHN, ENCFF799NMK, ENCFF846YPA	542551	ENCODE Processing Pipeline	dade819d689c4ea2e878e83004ee4f3b		https://www.encodeproject.org/files/ENCFF567GSX/@@download/ENCFF567GSX.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF870CER	bed narrowPeak	optimal idr thresholded peaks	ENCSR197DJH	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				SREBF1-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF225KYS, ENCFF531PCT, ENCFF642ZUX	194548	ENCODE Processing Pipeline	cf46823662aa528fb2ccec35723bccae		https://www.encodeproject.org/files/ENCFF870CER/@@download/ENCFF870CER.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF920HDC	bed narrowPeak	optimal idr thresholded peaks	ENCSR347NOB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CEBPZ-human	DNA					False	2016-03-02	ENCODE				1, 3							ENCFF001TDO, ENCFF045PNJ, ENCFF140CXA, ENCFF932DYK	20648	ENCODE Processing Pipeline	e61bfccca114033dcdd022214dce007f		https://www.encodeproject.org/files/ENCFF920HDC/@@download/ENCFF920HDC.bed.gz	hg19			released	low read length, low read depth			
ENCFF043YZF	bed narrowPeak	optimal idr thresholded peaks	ENCSR832OGB	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				LEF1-human	DNA					False	2017-05-17	ENCODE				3, 4							ENCFF001TDO, ENCFF404ZDG, ENCFF700RYG, ENCFF804WBF	98778	ENCODE Processing Pipeline	35c35430c78f681d42182db300ec48a9		https://www.encodeproject.org/files/ENCFF043YZF/@@download/ENCFF043YZF.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF640ORY	bed narrowPeak	optimal idr thresholded peaks	ENCSR184MFH	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				ZFP36-human	DNA					False	2014-07-07	ENCODE				1, 3							ENCFF001TDO, ENCFF233ITG, ENCFF491ZMR, ENCFF979YOQ	61240	ENCODE Processing Pipeline	9e4bcfd497cd57be71e9c3fccf8aba30		https://www.encodeproject.org/files/ENCFF640ORY/@@download/ENCFF640ORY.bed.gz	hg19			released	low read length, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF266ORV	bed narrowPeak	optimal idr thresholded peaks	ENCSR473SUA	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				ESRRA-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF391VQJ, ENCFF705XME, ENCFF804JRA	49062	ENCODE Processing Pipeline	ce2747e5015c7e856e938d40df5e310a		https://www.encodeproject.org/files/ENCFF266ORV/@@download/ENCFF266ORV.bed.gz	hg19			released	file validation error, low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	mismatched file status		
ENCFF044NEB	bed narrowPeak	optimal idr thresholded peaks	ENCSR954WVZ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ESRRA-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF486JBY, ENCFF526YPV, ENCFF671MPM	217643	ENCODE Processing Pipeline	513e2c9ea79bc8dcc6bb801f67e6a7b5		https://www.encodeproject.org/files/ENCFF044NEB/@@download/ENCFF044NEB.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF040STP	bed narrowPeak	optimal idr thresholded peaks	ENCSR954WVZ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ESRRA-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF094SQM, ENCFF181NXH, ENCFF394AHT	178771	ENCODE Processing Pipeline	9b97bb8fae61a2408b02082eb66a1c5f		https://www.encodeproject.org/files/ENCFF040STP/@@download/ENCFF040STP.bed.gz	hg19			archived	mild to moderate bottlenecking			
ENCFF779HAK	bed narrowPeak	optimal idr thresholded peaks	ENCSR080CST	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				eGFP-ZNF639-human	DNA				formaldehyde	False	2016-10-07	ENCODE				1, 2							ENCFF001TDO, ENCFF286QPO, ENCFF358DXV, ENCFF475IAW	330900	ENCODE Processing Pipeline	8722fa4f64d15c5fcac98cd932aaeed0		https://www.encodeproject.org/files/ENCFF779HAK/@@download/ENCFF779HAK.bed.gz	hg19			released	missing genetic modification characterization			missing control alignments
ENCFF651PWG	bed narrowPeak	optimal idr thresholded peaks	ENCSR135ANT	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				NRF1-human	DNA					False	2016-06-14	ENCODE				1, 3							ENCFF001TDO, ENCFF187EXP, ENCFF444PKI, ENCFF466LLW	120459	ENCODE Processing Pipeline	f02c4a616c04a2ab5784f3edd9a3c916		https://www.encodeproject.org/files/ENCFF651PWG/@@download/ENCFF651PWG.bed.gz	hg19			released				
ENCFF492GXZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR508DQA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				FOXK2-human	DNA					False	2016-04-22	ENCODE				1, 2							ENCFF001TDO, ENCFF158PJI, ENCFF188GHO, ENCFF451DBC	368132	ENCODE Processing Pipeline	78f64e4354c002e60b1ba43e77ebe73c		https://www.encodeproject.org/files/ENCFF492GXZ/@@download/ENCFF492GXZ.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF816GRJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR210ZYL	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NBN-human	DNA					False	2017-05-18	ENCODE				3, 4							ENCFF030UIB, ENCFF197WCL, ENCFF738RRZ	49942	ENCODE Processing Pipeline	b1c3e005f164c4884804f80a1050381e		https://www.encodeproject.org/files/ENCFF816GRJ/@@download/ENCFF816GRJ.bed.gz	hg19			archived	borderline replicate concordance			
ENCFF075PDC	bed narrowPeak	optimal idr thresholded peaks	ENCSR210ZYL	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NBN-human	DNA					False	2017-05-18	ENCODE				3, 4							ENCFF001TDO, ENCFF084RKF, ENCFF860QPW, ENCFF904SKF	48337	ENCODE Processing Pipeline	abda608c14d5e0e618df18420c4dc60b		https://www.encodeproject.org/files/ENCFF075PDC/@@download/ENCFF075PDC.bed.gz	hg19			released	borderline replicate concordance			
ENCFF188XRD	bed narrowPeak	optimal idr thresholded peaks	ENCSR892DRK	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				REST-human	DNA					False	2016-11-23	ENCODE				1, 2							ENCFF001TDO, ENCFF430GOT, ENCFF767OVA, ENCFF819QEC	183739	ENCODE Processing Pipeline	628ccc989464e3745af21f78c7c0831b		https://www.encodeproject.org/files/ENCFF188XRD/@@download/ENCFF188XRD.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption			
ENCFF405RGE	bed narrowPeak	optimal idr thresholded peaks	ENCSR984MDV	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				eGFP-ZNF24-human	DNA				formaldehyde	False	2016-10-07	ENCODE				1, 2							ENCFF001TDO, ENCFF581CAJ, ENCFF722BQJ, ENCFF899PSA	404688	ENCODE Processing Pipeline	6f19ceea45043e71e9e58aef27978f87		https://www.encodeproject.org/files/ENCFF405RGE/@@download/ENCFF405RGE.bed.gz	hg19			released	missing genetic modification characterization			missing control alignments
ENCFF735WFO	bed narrowPeak	optimal idr thresholded peaks	ENCSR061DGF	ChIP-seq	EFO:0007950	GM23338	induced pluripotent stem cell line	Homo sapiens				NANOG-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF039PBB, ENCFF326RNA, ENCFF967PXA	200875	ENCODE Processing Pipeline	29c10e45fa37cf7416d81f1e6f977d5c		https://www.encodeproject.org/files/ENCFF735WFO/@@download/ENCFF735WFO.bed.gz	hg19			released	borderline replicate concordance, antibody characterized with exemption	biological replicates with identical biosample, experiment not submitted to GEO		
ENCFF520CSO	bed narrowPeak	optimal idr thresholded peaks	ENCSR862PNL	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				L3MBTL2-human	DNA					False	2016-11-21	ENCODE				1, 2							ENCFF001TDO, ENCFF394TJZ, ENCFF730CLD, ENCFF836EUO	494230	ENCODE Processing Pipeline	630131dae357dfd7d8bf962892cbc130		https://www.encodeproject.org/files/ENCFF520CSO/@@download/ENCFF520CSO.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF726VEK	bed narrowPeak	optimal idr thresholded peaks	ENCSR014YCR	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ATF7-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF225TLM, ENCFF640EFU, ENCFF938MOR	702985	ENCODE Processing Pipeline	854d3dcf4854f6b4f25251cadf429439		https://www.encodeproject.org/files/ENCFF726VEK/@@download/ENCFF726VEK.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF213EPU	bed narrowPeak	optimal idr thresholded peaks	ENCSR486IFJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ESRRA-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF106AUG, ENCFF406YGF, ENCFF619KMH	592333	ENCODE Processing Pipeline	bfd05e28fd40d1e2a57b194812d2950e		https://www.encodeproject.org/files/ENCFF213EPU/@@download/ENCFF213EPU.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF602OKQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR486IFJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ESRRA-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF122FWH, ENCFF240NFK, ENCFF313UKE	520809	ENCODE Processing Pipeline	03db0bf5bd21f1912d550e6072f5ece4		https://www.encodeproject.org/files/ENCFF602OKQ/@@download/ENCFF602OKQ.bed.gz	hg19			archived	mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF659WAF	bed narrowPeak	optimal idr thresholded peaks	ENCSR343ELW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				LEF1-human	DNA					False	2016-07-05	ENCODE				3, 4							ENCFF001TDO, ENCFF421AHE, ENCFF506NOD, ENCFF857NTV	338164	ENCODE Processing Pipeline	17a9dcb21ebd4ab5fd04becd0fe896f9		https://www.encodeproject.org/files/ENCFF659WAF/@@download/ENCFF659WAF.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF166OZW	bed narrowPeak	optimal idr thresholded peaks	ENCSR590KEQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ARNT-human	DNA					False	2017-11-14	ENCODE				2, 3							ENCFF001TDO, ENCFF076KST, ENCFF120JZJ, ENCFF432CDN	392782	ENCODE Processing Pipeline	bc27294f20916f956fe9f163466e61a7		https://www.encodeproject.org/files/ENCFF166OZW/@@download/ENCFF166OZW.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity	experiment not submitted to GEO		
ENCFF144FQA	bed narrowPeak	optimal idr thresholded peaks	ENCSR171FUX	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOXK2-human	DNA					False	2016-04-22	ENCODE				1, 2							ENCFF001TDO, ENCFF076ZSW, ENCFF765WNF, ENCFF834WHV	196025	ENCODE Processing Pipeline	17e7c688b36ce8a85f53635d7fa8324d		https://www.encodeproject.org/files/ENCFF144FQA/@@download/ENCFF144FQA.bed.gz	hg19			released				
ENCFF849ZUF	bed narrowPeak	optimal idr thresholded peaks	ENCSR563YDA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HDGF-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF328KFN, ENCFF415ZVO, ENCFF701JMF	214540	ENCODE Processing Pipeline	5889d9be33d5b555b97ac8b885edd835		https://www.encodeproject.org/files/ENCFF849ZUF/@@download/ENCFF849ZUF.bed.gz	hg19			released				
ENCFF676NPW	bed narrowPeak	optimal idr thresholded peaks	ENCSR091JXL	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HES1-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF222PPL, ENCFF786MKH, ENCFF860KMP	171892	ENCODE Processing Pipeline	b2426299acedb3521638e6d425f68ba5		https://www.encodeproject.org/files/ENCFF676NPW/@@download/ENCFF676NPW.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF904HOD	bed narrowPeak	optimal idr thresholded peaks	ENCSR076EZB	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				eGFP-KLF9-human	DNA				formaldehyde	False	2016-10-07	ENCODE				1, 2							ENCFF001TDO, ENCFF269OXE, ENCFF344BWA, ENCFF621XNB	446663	ENCODE Processing Pipeline	33190e94f5e15116004409a0363b4ac7		https://www.encodeproject.org/files/ENCFF904HOD/@@download/ENCFF904HOD.bed.gz	hg19			released	low read depth, missing genetic modification characterization			missing control alignments
ENCFF776XRJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR252QYR	ChIP-seq	CL:0000182	hepatocyte	in vitro differentiated cells	Homo sapiens				CTCF-human	DNA					False	2016-11-23	ENCODE				1, 2							ENCFF001TDO, ENCFF345DIK, ENCFF930XLW, ENCFF996USV	797130	ENCODE Processing Pipeline	84d8d7eb11a665074e4b30090ff0197d		https://www.encodeproject.org/files/ENCFF776XRJ/@@download/ENCFF776XRJ.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	NTR biosample	poor library complexity	
ENCFF539CKD	bed narrowPeak	optimal idr thresholded peaks	ENCSR542FLV	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZBTB33-human	DNA					False	2017-11-13	ENCODE				1, 4							ENCFF001TDO, ENCFF038RJE, ENCFF480CCO, ENCFF833YUF	175352	ENCODE Processing Pipeline	7d363f200e0f6652249cddc58feb5f2d		https://www.encodeproject.org/files/ENCFF539CKD/@@download/ENCFF539CKD.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance	experiment not submitted to GEO		
ENCFF905VXX	bed narrowPeak	optimal idr thresholded peaks	ENCSR429XTR	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TARDBP-human	DNA			SDS	formaldehyde	False	2017-02-27	ENCODE				1, 2							ENCFF001TDO, ENCFF368IHM, ENCFF700XRO, ENCFF958WJN	148569	ENCODE Processing Pipeline	dc9b0aa9306a30f02136fb2eb7c10c72		https://www.encodeproject.org/files/ENCFF905VXX/@@download/ENCFF905VXX.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth			
ENCFF095GMM	bed narrowPeak	optimal idr thresholded peaks	ENCSR987MTA	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BHLHE40-human	DNA					False	2017-01-31	ENCODE				4, 5							ENCFF001TDO, ENCFF172YHV, ENCFF468GKJ, ENCFF884ZYH	904897	ENCODE Processing Pipeline	c23284256b4100cd845e6f844e468872		https://www.encodeproject.org/files/ENCFF095GMM/@@download/ENCFF095GMM.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, low read depth	duplicate lane review		
ENCFF032DEW	bed narrowPeak	optimal idr thresholded peaks	ENCSR243INX	ChIP-seq	EFO:0002847	PC-9	cell line	Homo sapiens				CTCF-human	DNA					False	2017-01-12	ENCODE				1, 2							ENCFF001TDO, ENCFF227KPY, ENCFF399PZK, ENCFF524ADR	1077256	ENCODE Processing Pipeline	2af95dd3b3a987bf9d9c29d4340c0e5b		https://www.encodeproject.org/files/ENCFF032DEW/@@download/ENCFF032DEW.bed.gz	hg19			released	mild to moderate bottlenecking, mixed run types, moderate library complexity, antibody characterized with exemption	NTR biosample		
ENCFF152VMJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR201NQZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CTBP1-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF066ESG, ENCFF467AZP, ENCFF860LBQ	860855	ENCODE Processing Pipeline	43558d97b59309ab4ef82a6f8566b6ec		https://www.encodeproject.org/files/ENCFF152VMJ/@@download/ENCFF152VMJ.bed.gz	hg19			released	borderline replicate concordance			
ENCFF614VFL	bed narrowPeak	optimal idr thresholded peaks	ENCSR157CAU	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZKSCAN1-human	DNA					False	2014-07-07	ENCODE				1, 3							ENCFF001TDO, ENCFF312ZWV, ENCFF354CCY, ENCFF893SRK	129340	ENCODE Processing Pipeline	36b24c36febd1db2d5ea0e2fc9789689		https://www.encodeproject.org/files/ENCFF614VFL/@@download/ENCFF614VFL.bed.gz	hg19			released	low read length, borderline replicate concordance			
ENCFF220KNX	bed narrowPeak	optimal idr thresholded peaks	ENCSR157CAU	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZKSCAN1-human	DNA					False	2014-07-07	ENCODE				1, 3							ENCFF001TDO, ENCFF047PAI, ENCFF887HYM, ENCFF913EOX	114301	ENCODE Processing Pipeline	530d1b8c3c1ea42f3b9576f68d93b047		https://www.encodeproject.org/files/ENCFF220KNX/@@download/ENCFF220KNX.bed.gz	hg19			archived	low read length, borderline replicate concordance			
ENCFF411BAO	bed narrowPeak	optimal idr thresholded peaks	ENCSR140DSL	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MAFF-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF145POH, ENCFF492VYK, ENCFF997ZWI	417897	ENCODE Processing Pipeline	93e40b0388115ea73bf792c3d8ac3034		https://www.encodeproject.org/files/ENCFF411BAO/@@download/ENCFF411BAO.bed.gz	hg19			released	low read length			
ENCFF939XMX	bed narrowPeak	optimal idr thresholded peaks	ENCSR140DSL	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MAFF-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF507YIO, ENCFF554QCN, ENCFF575MOS	387529	ENCODE Processing Pipeline	b5dec8637459a297eb2a3963dce733a9		https://www.encodeproject.org/files/ENCFF939XMX/@@download/ENCFF939XMX.bed.gz	hg19			archived	low read length			
ENCFF085BBF	bed narrowPeak	optimal idr thresholded peaks	ENCSR179SAO	ChIP-seq	EFO:0002106	A673	cell line	Homo sapiens				EZH2-human	DNA					False	2017-11-29	ENCODE				1, 2							ENCFF001TDO, ENCFF155LWQ, ENCFF220SFO, ENCFF396SZC	141143	ENCODE Processing Pipeline	62e8c175705b78fd53128f0862c166eb		https://www.encodeproject.org/files/ENCFF085BBF/@@download/ENCFF085BBF.bed.gz	hg19			released	borderline replicate concordance, low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption, mixed read lengths	NTR biosample, experiment not submitted to GEO	poor library complexity, severe bottlenecking	
ENCFF761MGJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR681NOM	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CEBPB-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF017STY, ENCFF284OML, ENCFF300RLB	41700	ENCODE Processing Pipeline	380214c27906f67ff28dec054d68900a		https://www.encodeproject.org/files/ENCFF761MGJ/@@download/ENCFF761MGJ.bed.gz	hg19			released	low read length, low read depth			
ENCFF246VJH	bed narrowPeak	optimal idr thresholded peaks	ENCSR377BLZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GTF2F1-human	DNA			SDS	formaldehyde	False	2018-01-16	ENCODE				1, 2							ENCFF001TDO, ENCFF498CHM, ENCFF559OHC, ENCFF583UDD	263665	ENCODE Processing Pipeline	73c53958a16e09e0c2ba93843f2da5c4		https://www.encodeproject.org/files/ENCFF246VJH/@@download/ENCFF246VJH.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	experiment not submitted to GEO	poor library complexity, severe bottlenecking	
ENCFF601XVA	bed narrowPeak	optimal idr thresholded peaks	ENCSR785OKZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RB1-human	DNA				formaldehyde	False	2017-06-07	ENCODE				3, 4							ENCFF001TDO, ENCFF436OTJ, ENCFF452IKX, ENCFF936FBJ	363397	ENCODE Processing Pipeline	04fd5d92531b46908c2f3bf60b199d9a		https://www.encodeproject.org/files/ENCFF601XVA/@@download/ENCFF601XVA.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance			
ENCFF620ZDF	bed narrowPeak	optimal idr thresholded peaks	ENCSR859BMR	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				eGFP-KLF1-human	DNA				formaldehyde	False	2016-10-07	ENCODE				1, 2							ENCFF001TDO, ENCFF045DDN, ENCFF177PBO, ENCFF875YEH	690446	ENCODE Processing Pipeline	2698efb354794c0218e90f40df413017		https://www.encodeproject.org/files/ENCFF620ZDF/@@download/ENCFF620ZDF.bed.gz	hg19			released	missing genetic modification characterization			missing control alignments
ENCFF492DZG	bed narrowPeak	optimal idr thresholded peaks	ENCSR288IJC	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MAZ-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF184RLT, ENCFF386ILV, ENCFF917ALR	364883	ENCODE Processing Pipeline	1671a4b78c9af2be9439811695455aab		https://www.encodeproject.org/files/ENCFF492DZG/@@download/ENCFF492DZG.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF688MSK	bed narrowPeak	optimal idr thresholded peaks	ENCSR288IJC	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MAZ-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF040IGJ, ENCFF364YQW, ENCFF920MOI	305755	ENCODE Processing Pipeline	b1586dfc4ee3e7a69a6c4677b32b5dfc		https://www.encodeproject.org/files/ENCFF688MSK/@@download/ENCFF688MSK.bed.gz	hg19			archived	antibody characterized with exemption			
ENCFF754GUT	bed narrowPeak	optimal idr thresholded peaks	ENCSR563FBT	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				USF2-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF228YLF, ENCFF664JOM, ENCFF735LLC	215763	ENCODE Processing Pipeline	f6f7b983fea0068328111da329526b42		https://www.encodeproject.org/files/ENCFF754GUT/@@download/ENCFF754GUT.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF980KSV	bed narrowPeak	optimal idr thresholded peaks	ENCSR861JUQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				FOXK2-human	DNA					False	2017-01-27	ENCODE				1, 2							ENCFF001TDO, ENCFF014VXF, ENCFF348PZF, ENCFF870DSA	101906	ENCODE Processing Pipeline	ceed3be232cda7bc789bc4f322683f0f		https://www.encodeproject.org/files/ENCFF980KSV/@@download/ENCFF980KSV.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF756HSC	bed narrowPeak	optimal idr thresholded peaks	ENCSR584ATA	ChIP-seq	EFO:0006710	OCI-LY3	cell line	Homo sapiens				EZH2phosphoT487-human	DNA					False	2018-02-06	ENCODE				1, 2							ENCFF001TDO, ENCFF796TTQ, ENCFF824PBX, ENCFF895NJW	33287	ENCODE Processing Pipeline	26be33f99880f04312294e96795f82df		https://www.encodeproject.org/files/ENCFF756HSC/@@download/ENCFF756HSC.bed.gz	hg19			released	mixed run types, low read depth, antibody characterized with exemption	biological replicates with identical biosample, NTR biosample, experiment not submitted to GEO		
ENCFF507MGL	bed narrowPeak	optimal idr thresholded peaks	ENCSR155KHM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ARNT-human	DNA					False	2016-04-21	ENCODE				1, 2							ENCFF001TDO, ENCFF011UZZ, ENCFF071HZE, ENCFF652WXC	214239	ENCODE Processing Pipeline	5840c9b0b65a89375f82d3cdf94ec1f5		https://www.encodeproject.org/files/ENCFF507MGL/@@download/ENCFF507MGL.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF343ULZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR866QPZ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ATF7-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF015TCM, ENCFF391ODX, ENCFF998CHH	434730	ENCODE Processing Pipeline	4ad000f92723a9df7fab2b70ff4cf1c9		https://www.encodeproject.org/files/ENCFF343ULZ/@@download/ENCFF343ULZ.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, antibody characterized with exemption			
ENCFF144FCI	bed narrowPeak	optimal idr thresholded peaks	ENCSR900XDB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZFP36-human	DNA					False	2014-07-07	ENCODE				4, 5							ENCFF001TDO, ENCFF380MCV, ENCFF527IRJ, ENCFF772RKI	175071	ENCODE Processing Pipeline	725a70663ca7828abe2e411b97c0330b		https://www.encodeproject.org/files/ENCFF144FCI/@@download/ENCFF144FCI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking	experiment not submitted to GEO	partially characterized antibody	
ENCFF355OQM	bed narrowPeak	optimal idr thresholded peaks	ENCSR066BZZ	ChIP-seq	CL:0000103	bipolar neuron	in vitro differentiated cells	Homo sapiens	doxycycline hyclate	0.5 μg/mL	4 day	CTCF-human	DNA					False	2016-11-24	ENCODE				1, 2							ENCFF001TDO, ENCFF282QPK, ENCFF566IFZ, ENCFF752PSY	1382660	ENCODE Processing Pipeline	aa33c900320825756bfd377ef566f12e		https://www.encodeproject.org/files/ENCFF355OQM/@@download/ENCFF355OQM.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption	NTR biosample		
ENCFF424KTS	bed narrowPeak	optimal idr thresholded peaks	ENCSR101FJS	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TBL1XR1-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF342PPK, ENCFF824GTA, ENCFF924XCI	184822	ENCODE Processing Pipeline	15651a1c0a92804f9536eab9314b760b		https://www.encodeproject.org/files/ENCFF424KTS/@@download/ENCFF424KTS.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF314ULQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR530XQI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				L3MBTL2-human	DNA					False	2016-06-23	ENCODE				1, 2							ENCFF001TDO, ENCFF471MPD, ENCFF706LNT, ENCFF875ISD	1006532	ENCODE Processing Pipeline	807407007c047f1cd624d59e5aff4373		https://www.encodeproject.org/files/ENCFF314ULQ/@@download/ENCFF314ULQ.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF490ZAU	bed narrowPeak	optimal idr thresholded peaks	ENCSR825MZS	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TAF15-human	DNA			SDS	formaldehyde	False	2018-01-16	ENCODE				1, 2							ENCFF001TDO, ENCFF137VXT, ENCFF762IGQ, ENCFF853BNC	346126	ENCODE Processing Pipeline	1e317e05556ff5fd386ff3b050195ef3		https://www.encodeproject.org/files/ENCFF490ZAU/@@download/ENCFF490ZAU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	experiment not submitted to GEO	poor library complexity, severe bottlenecking	
ENCFF221ZIG	bed narrowPeak	optimal idr thresholded peaks	ENCSR131FFJ	ChIP-seq	EFO:0005723	GM23248	cell line	Homo sapiens				EZH2-human	DNA					False	2018-03-09	ENCODE				1, 2							ENCFF001TDO, ENCFF486RTH, ENCFF661PVV, ENCFF878CWL	139515	ENCODE Processing Pipeline	41cd894388403b3786f034d4ed8bfea6		https://www.encodeproject.org/files/ENCFF221ZIG/@@download/ENCFF221ZIG.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF868QLL	bed narrowPeak	optimal idr thresholded peaks	ENCSR972ZBV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ATF7-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF606UFV, ENCFF611BUY, ENCFF821WIF	855049	ENCODE Processing Pipeline	96c0eed56cbef77b05a368374d122077		https://www.encodeproject.org/files/ENCFF868QLL/@@download/ENCFF868QLL.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF002DBX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPP	ChIP-seq	NTR:0000479	AG09309	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001GWZ, ENCFF001GXC	909696	ENCODE Consortium Analysis Working Group	e4c9ca3fd0bbe016c349e411ec6c52e3		https://www.encodeproject.org/files/ENCFF002DBX/@@download/ENCFF002DBX.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms	NTR biosample	control insufficient read depth, insufficient read depth	missing control alignments
ENCFF622DUX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPP	ChIP-seq	NTR:0000479	AG09309	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF042OUP, ENCFF299COL, ENCFF437UAR	711204	ENCODE Processing Pipeline	0d3d0dc20ceb418bf2381474049dad66		https://www.encodeproject.org/files/ENCFF622DUX/@@download/ENCFF622DUX.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms	NTR biosample	control insufficient read depth, insufficient read depth	missing control alignments
ENCFF418WAW	bed narrowPeak	optimal idr thresholded peaks	ENCSR240PRQ	ChIP-seq	EFO:0002824	HCT116	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2017-10-19	ENCODE				1, 2							ENCFF001TDO, ENCFF222WLA, ENCFF417KAW, ENCFF963ROK	969434	ENCODE Processing Pipeline	3056834266bad8a9c6e898a1b1c33d74		https://www.encodeproject.org/files/ENCFF418WAW/@@download/ENCFF418WAW.bed.gz	hg19			released	low read length, mixed run types, antibody characterized with exemption, mixed read lengths	NTR biosample, experiment not submitted to GEO		
ENCFF365WFM	bed narrowPeak	optimal idr thresholded peaks	ENCSR697CUP	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				HCFC1-human	DNA					False	2016-02-16	ENCODE				1, 3							ENCFF001TDO, ENCFF501NKG, ENCFF701BHY, ENCFF938AEH	239330	ENCODE Processing Pipeline	03b8c0259791519294cbf7103dec34a8		https://www.encodeproject.org/files/ENCFF365WFM/@@download/ENCFF365WFM.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF365ICU	bed narrowPeak	optimal idr thresholded peaks	ENCSR611WZO	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				SREBF2-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF039TDK, ENCFF427ZLR, ENCFF969UCK	95703	ENCODE Processing Pipeline	452936171288c14882683e4db423b6c3		https://www.encodeproject.org/files/ENCFF365ICU/@@download/ENCFF365ICU.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF116EAM	bed narrowPeak	optimal idr thresholded peaks	ENCSR611WZO	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				SREBF2-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF039TLE, ENCFF406LXU, ENCFF479OQC	81695	ENCODE Processing Pipeline	ed61691da991ed1bec05e808964ba7e8		https://www.encodeproject.org/files/ENCFF116EAM/@@download/ENCFF116EAM.bed.gz	hg19			archived	mild to moderate bottlenecking			
ENCFF711OSR	bed narrowPeak	optimal idr thresholded peaks	ENCSR439WAF	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				E4F1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF054XUN, ENCFF471IVB, ENCFF717MTX	110065	ENCODE Processing Pipeline	f1f2426bc50072ce5eede047ee65a239		https://www.encodeproject.org/files/ENCFF711OSR/@@download/ENCFF711OSR.bed.gz	hg19			released	mild to moderate bottlenecking	experiment not submitted to GEO	partially characterized antibody	
ENCFF303PMJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR635EXI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZSCAN29-human	DNA					False	2017-11-20	ENCODE				1, 3							ENCFF001TDO, ENCFF259GFJ, ENCFF301MWW, ENCFF959BCM	105003	ENCODE Processing Pipeline	d1ef6c0a0056c7d72b674fe178969dd2		https://www.encodeproject.org/files/ENCFF303PMJ/@@download/ENCFF303PMJ.bed.gz	hg19			released		experiment not submitted to GEO		
ENCFF751DRF	bed narrowPeak	optimal idr thresholded peaks	ENCSR897ZXU	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				E2F8-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF093MAU, ENCFF226PXS, ENCFF262ETY	45000	ENCODE Processing Pipeline	c3e581d5c27bb0218e2a3c4578ef20bf		https://www.encodeproject.org/files/ENCFF751DRF/@@download/ENCFF751DRF.bed.gz	hg19			released		experiment not submitted to GEO	partially characterized antibody	
ENCFF007ATC	bed narrowPeak	optimal idr thresholded peaks	ENCSR520VTO	ChIP-seq	EFO:0005907	OCI-LY1	cell line	Homo sapiens				EZH2-human	DNA		see document	see document		False	2017-11-19	ENCODE				1, 2							ENCFF001TDO, ENCFF017WDB, ENCFF419TOT, ENCFF474LJV	3218	ENCODE Processing Pipeline	8ca2251e458ef9a0aea0ba9d03b41b8e		https://www.encodeproject.org/files/ENCFF007ATC/@@download/ENCFF007ATC.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, mixed run types, low read depth, antibody characterized with exemption, mixed read lengths	NTR biosample, experiment not submitted to GEO		
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		
ENCFF757YVY	bed narrowPeak	optimal idr thresholded peaks	ENCSR664OKA	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				ELK1-human	DNA					False	2016-09-01	ENCODE				1, 2							ENCFF001TDO, ENCFF147QXV, ENCFF306SXM, ENCFF577IGI	11970	ENCODE Processing Pipeline	f018341d3a30509fa7fc898006745013		https://www.encodeproject.org/files/ENCFF757YVY/@@download/ENCFF757YVY.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	duplicate lane review		
ENCFF586KIH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AHD	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-09-10	ENCODE				1, 2							ENCFF001TDO, ENCFF664CSQ, ENCFF762LDF, ENCFF768KKE	916340	ENCODE Processing Pipeline	5a8e504b171a26058efc3a830eef1183		https://www.encodeproject.org/files/ENCFF586KIH/@@download/ENCFF586KIH.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth			
ENCFF140MVM	bed narrowPeak	optimal idr thresholded peaks	ENCSR069DPL	ChIP-seq	NTR:0000711	neural progenitor cell	in vitro differentiated cells	Homo sapiens				EZH2-human	DNA					False	2017-11-16	ENCODE				1, 2							ENCFF001TDO, ENCFF006UUP, ENCFF024LWI, ENCFF483PBA	443965	ENCODE Processing Pipeline	32b5d01223cb50a1a20a210ec3c20256		https://www.encodeproject.org/files/ENCFF140MVM/@@download/ENCFF140MVM.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF247GZH	bed narrowPeak	optimal idr thresholded peaks	ENCSR072EUE	ChIP-seq	EFO:0005907	OCI-LY1	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2017-11-13	ENCODE				1, 2							ENCFF001TDO, ENCFF210LCR, ENCFF827ONU, ENCFF990HKP	897307	ENCODE Processing Pipeline	9500ee7049128a297fadb6618bc4d112		https://www.encodeproject.org/files/ENCFF247GZH/@@download/ENCFF247GZH.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity, mixed read lengths, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF985TSH	bed narrowPeak	optimal idr thresholded peaks	ENCSR815ZDS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SREBF1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF554XAI, ENCFF716GBZ, ENCFF826WTJ	53139	ENCODE Processing Pipeline	5d034408cc2d73bb6d706caeaaeeb6ae		https://www.encodeproject.org/files/ENCFF985TSH/@@download/ENCFF985TSH.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF890YEO	bed narrowPeak	optimal idr thresholded peaks	ENCSR815ZDS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SREBF1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF085MZN, ENCFF405AOP, ENCFF916KLD	46140	ENCODE Processing Pipeline	c0e06ca08ca05f128423079002568224		https://www.encodeproject.org/files/ENCFF890YEO/@@download/ENCFF890YEO.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF312RFN	bed narrowPeak	optimal idr thresholded peaks	ENCSR888XZK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TCF7L2-human	DNA					False	2016-07-28	ENCODE				1, 2							ENCFF001TDO, ENCFF060XZX, ENCFF274DVQ, ENCFF975NRI	34454	ENCODE Processing Pipeline	0d2abc09baae3bbab2319c87770d5ba6		https://www.encodeproject.org/files/ENCFF312RFN/@@download/ENCFF312RFN.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF884RAO	bed narrowPeak	optimal idr thresholded peaks	ENCSR231ENE	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ARID3A-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF041CMD, ENCFF500TQK, ENCFF749YOZ	28997	ENCODE Processing Pipeline	e9107d75716f1b238516c9e39715ad08		https://www.encodeproject.org/files/ENCFF884RAO/@@download/ENCFF884RAO.bed.gz	hg19			released	borderline replicate concordance			
ENCFF015PGM	bed narrowPeak	optimal idr thresholded peaks	ENCSR788XNX	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				RFX1-human	DNA					False	2016-06-23	ENCODE				1, 2							ENCFF001TDO, ENCFF270NHR, ENCFF633FJC, ENCFF736XAR	253341	ENCODE Processing Pipeline	1ab6521ee737225dbeff8ca8348955fb		https://www.encodeproject.org/files/ENCFF015PGM/@@download/ENCFF015PGM.bed.gz	hg19			released	low read depth			
ENCFF318QLK	bed narrowPeak	optimal idr thresholded peaks	ENCSR882ICT	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				ZNF384-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF407DGA, ENCFF930CXT, ENCFF943FOK	324419	ENCODE Processing Pipeline	a9c5e13520aed738df7f24f3f65c52fe		https://www.encodeproject.org/files/ENCFF318QLK/@@download/ENCFF318QLK.bed.gz	hg19			released				
ENCFF287ORE	bed narrowPeak	optimal idr thresholded peaks	ENCSR042TWZ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				SNIP1-human	DNA					False	2017-06-23	ENCODE				1, 2							ENCFF001TDO, ENCFF012TME, ENCFF689XKH, ENCFF749UEV	68038	ENCODE Processing Pipeline	82dd3d27f3266ae674d6b855a13c6937		https://www.encodeproject.org/files/ENCFF287ORE/@@download/ENCFF287ORE.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity			
ENCFF178LCE	bed narrowPeak	optimal idr thresholded peaks	ENCSR912ATU	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZNF217-human	DNA					False	2017-11-13	ENCODE				2, 3							ENCFF001TDO, ENCFF176ZIJ, ENCFF740DFA, ENCFF988SMP	59384	ENCODE Processing Pipeline	615eeee00b09b2d3f598326eb3bee61d		https://www.encodeproject.org/files/ENCFF178LCE/@@download/ENCFF178LCE.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	experiment not submitted to GEO		
ENCFF344OJI	bed narrowPeak	optimal idr thresholded peaks	ENCSR205SKQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				YBX1-human	DNA					False	2016-08-24	ENCODE				1, 2							ENCFF001TDO, ENCFF009QEI, ENCFF015RED, ENCFF019TVN	44947	ENCODE Processing Pipeline	8f76cd4eaefe9893f5ed8affc6e9a2ad		https://www.encodeproject.org/files/ENCFF344OJI/@@download/ENCFF344OJI.bed.gz	hg19			released	file validation error, borderline replicate concordance, antibody characterized with exemption	mismatched file status		
ENCFF935HIG	bed narrowPeak	optimal idr thresholded peaks	ENCSR145XQO	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				HDGF-human	DNA					False	2016-08-24	ENCODE				1, 2							ENCFF001TDO, ENCFF432SFP, ENCFF637CIX, ENCFF816GZA	401608	ENCODE Processing Pipeline	10e3149096e5eb728da6251a011656f6		https://www.encodeproject.org/files/ENCFF935HIG/@@download/ENCFF935HIG.bed.gz	hg19			released	file validation error, antibody characterized with exemption	mismatched file status		
ENCFF359IPV	bed narrowPeak	optimal idr thresholded peaks	ENCSR124AIG	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				FOS-human	DNA					False	2016-12-19	ENCODE				1, 2							ENCFF001TDO, ENCFF332EWZ, ENCFF522TKF, ENCFF714YWI	579404	ENCODE Processing Pipeline	8fe42a8e0c96a42da9a055e03e58aed6		https://www.encodeproject.org/files/ENCFF359IPV/@@download/ENCFF359IPV.bed.gz	hg19			released	low read length, low read depth	duplicate lane review		
ENCFF581ZZT	bed narrowPeak	optimal idr thresholded peaks	ENCSR742TMU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF282-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF313WJM, ENCFF603AEE, ENCFF802MWF	244445	ENCODE Processing Pipeline	1ee0c43847b45d2db7e83b4bc1c076d2		https://www.encodeproject.org/files/ENCFF581ZZT/@@download/ENCFF581ZZT.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity	experiment not submitted to GEO	partially characterized antibody	
ENCFF550UEU	bed narrowPeak	optimal idr thresholded peaks	ENCSR760UKJ	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				ARNT-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF121FBN, ENCFF139FWO, ENCFF715GDR	98682	ENCODE Processing Pipeline	813259a064946656fcfdc88f1bede48e		https://www.encodeproject.org/files/ENCFF550UEU/@@download/ENCFF550UEU.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF444QJT	bed narrowPeak	optimal idr thresholded peaks	ENCSR565XSL	ChIP-seq	EFO:0006711	OCI-LY7	cell line	Homo sapiens				EZH2phosphoT487-human	DNA		see document	see document		False	2018-02-06	ENCODE				1, 2							ENCFF001TDO, ENCFF283OGT, ENCFF502WVO, ENCFF750MDG	24131	ENCODE Processing Pipeline	e9c7996dbbdf5f9133abc392aadbdfe7		https://www.encodeproject.org/files/ENCFF444QJT/@@download/ENCFF444QJT.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, mixed run types, low read depth, antibody characterized with exemption, mixed read lengths	NTR biosample, experiment not submitted to GEO		
ENCFF304IDM	bed narrowPeak	optimal idr thresholded peaks	ENCSR265ARE	ChIP-seq	EFO:0007752	VCaP	cell line	Homo sapiens				CTCF-human	DNA					False	2017-07-21	ENCODE				1, 2							ENCFF001TDO, ENCFF247RAX, ENCFF514JGP, ENCFF536CTG	1543624	ENCODE Processing Pipeline	56d93fec54a90ac5c5269b5284cc2f20		https://www.encodeproject.org/files/ENCFF304IDM/@@download/ENCFF304IDM.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF561WNI	bed narrowPeak	optimal idr thresholded peaks	ENCSR197ALX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HDGF-human	DNA					False	2016-08-05	ENCODE				1, 2							ENCFF001TDO, ENCFF264KUV, ENCFF385LTD, ENCFF409HKO	176911	ENCODE Processing Pipeline	938fcbd1e3573ad84cdb46925b19eb89		https://www.encodeproject.org/files/ENCFF561WNI/@@download/ENCFF561WNI.bed.gz	hg19			released	low read depth, antibody characterized with exemption			
ENCFF516AJC	bed narrowPeak	optimal idr thresholded peaks	ENCSR597VGC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ETV6-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF831JVY, ENCFF862QRJ, ENCFF959JZX	74606	ENCODE Processing Pipeline	316374d55e9babf8e309648be088e6f9		https://www.encodeproject.org/files/ENCFF516AJC/@@download/ENCFF516AJC.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity			
ENCFF304WER	bed narrowPeak	optimal idr thresholded peaks	ENCSR597VGC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ETV6-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF223SSQ, ENCFF229JRX, ENCFF619OWB	60721	ENCODE Processing Pipeline	03d66d5223fdbf6557b9ae28d5174c0f		https://www.encodeproject.org/files/ENCFF304WER/@@download/ENCFF304WER.bed.gz	hg19			archived	mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity			
ENCFF451RKK	bed narrowPeak	optimal idr thresholded peaks	ENCSR557JTZ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				GTF2F1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF331EWI, ENCFF376IUM, ENCFF601FJF	214449	ENCODE Processing Pipeline	2f9f6a2c05c6da3570536da4a30e062d		https://www.encodeproject.org/files/ENCFF451RKK/@@download/ENCFF451RKK.bed.gz	hg19			released				
ENCFF456LHH	bed narrowPeak	optimal idr thresholded peaks	ENCSR557JTZ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				GTF2F1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF361MVW, ENCFF380LCN, ENCFF603JPR	177487	ENCODE Processing Pipeline	282ae8a3ddad3adf5de6b086f9682c33		https://www.encodeproject.org/files/ENCFF456LHH/@@download/ENCFF456LHH.bed.gz	hg19			archived				
ENCFF282AEY	bed narrowPeak	optimal idr thresholded peaks	ENCSR623KNM	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				ELK1-human	DNA					False	2014-07-07	ENCODE				1, 3							ENCFF001TDO, ENCFF044AVI, ENCFF056BGC, ENCFF294MMU	9345	ENCODE Processing Pipeline	406629fca7d1601a984475d602c7c8cb		https://www.encodeproject.org/files/ENCFF282AEY/@@download/ENCFF282AEY.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	duplicate lane review		
ENCFF503AZK	bed narrowPeak	optimal idr thresholded peaks	ENCSR337NWW	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				HDAC2-human	DNA					False	2016-10-14	ENCODE				1, 2							ENCFF001TDO, ENCFF514KXZ, ENCFF686QQS, ENCFF973BDU	122502	ENCODE Processing Pipeline	524e5189e3cc154582971252084975a0		https://www.encodeproject.org/files/ENCFF503AZK/@@download/ENCFF503AZK.bed.gz	hg19			released				
ENCFF168INE	bed narrowPeak	optimal idr thresholded peaks	ENCSR168SMX	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				NR2F2-human	DNA					False	2016-08-18	ENCODE				1, 2							ENCFF001TDO, ENCFF411FEE, ENCFF491JFL, ENCFF615HHV	690741	ENCODE Processing Pipeline	75a88e99090b799ce8034d216030b7e7		https://www.encodeproject.org/files/ENCFF168INE/@@download/ENCFF168INE.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF043HEN	bed narrowPeak	optimal idr thresholded peaks	ENCSR168SMX	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				NR2F2-human	DNA					False	2016-08-18	ENCODE				1, 2							ENCFF001TDO, ENCFF414TMK, ENCFF517GNM, ENCFF703VGN	611435	ENCODE Processing Pipeline	0fd15e7d5d5cb7811e831ffc2fd6b812		https://www.encodeproject.org/files/ENCFF043HEN/@@download/ENCFF043HEN.bed.gz	hg19			archived	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF948TXN	bed narrowPeak	optimal idr thresholded peaks	ENCSR077DKV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CREM-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF045SMN, ENCFF357OAA, ENCFF477IXW	627991	ENCODE Processing Pipeline	faf8f9d6ef509ef17dd410cd21d30238		https://www.encodeproject.org/files/ENCFF948TXN/@@download/ENCFF948TXN.bed.gz	hg19			released	low read depth, antibody characterized with exemption			
ENCFF990CFV	bed narrowPeak	optimal idr thresholded peaks	ENCSR364SNE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				POU5F1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF272EQO, ENCFF705MDG, ENCFF768INF	41921	ENCODE Processing Pipeline	8be2419d12baba94256451bb4acfde78		https://www.encodeproject.org/files/ENCFF990CFV/@@download/ENCFF990CFV.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	experiment not submitted to GEO	partially characterized antibody	
ENCFF651LIG	bed narrowPeak	optimal idr thresholded peaks	ENCSR352QSB	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				RXRA-human	DNA					False	2017-12-01	ENCODE				1, 2							ENCFF001TDO, ENCFF020HWP, ENCFF328XQD, ENCFF458DFL	950321	ENCODE Processing Pipeline	c598205029cccfb7ff103ac57aaddb1e		https://www.encodeproject.org/files/ENCFF651LIG/@@download/ENCFF651LIG.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample, experiment not submitted to GEO		
ENCFF127RVQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR897JAS	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CREB1-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF351PGN, ENCFF521INM, ENCFF634HLA	881747	ENCODE Processing Pipeline	2f0a214c3caca2c724991bc88dc1434a		https://www.encodeproject.org/files/ENCFF127RVQ/@@download/ENCFF127RVQ.bed.gz	hg19			released				
ENCFF353QLW	bed narrowPeak	optimal idr thresholded peaks	ENCSR449UFF	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZKSCAN1-human	DNA					False	2016-06-14	ENCODE				3, 4							ENCFF001TDO, ENCFF013VWS, ENCFF216ONL, ENCFF387UKV	117342	ENCODE Processing Pipeline	fa969ad37ed6d708c5126ca4cbe28e79		https://www.encodeproject.org/files/ENCFF353QLW/@@download/ENCFF353QLW.bed.gz	hg19			released				
ENCFF150TBK	bed narrowPeak	optimal idr thresholded peaks	ENCSR066TET	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				RFX1-human	DNA					False	2016-06-23	ENCODE				1, 3							ENCFF001TDO, ENCFF128GZH, ENCFF367XOV, ENCFF588ODL	483003	ENCODE Processing Pipeline	3b7244abb3c710105e4641632bb37970		https://www.encodeproject.org/files/ENCFF150TBK/@@download/ENCFF150TBK.bed.gz	hg19			released	mild to moderate bottlenecking			
ENCFF902IMW	bed narrowPeak	optimal idr thresholded peaks	ENCSR109ODF	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				HES1-human	DNA					False	2017-04-14	ENCODE				1, 2							ENCFF001TDO, ENCFF609EET, ENCFF779NYR, ENCFF794UGE	92144	ENCODE Processing Pipeline	45232ad38904dc1dbab3a90de46e8176		https://www.encodeproject.org/files/ENCFF902IMW/@@download/ENCFF902IMW.bed.gz	hg19			released				
ENCFF708GMO	bed narrowPeak	optimal idr thresholded peaks	ENCSR230ZWH	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				RAD21-human	DNA					False	2016-10-12	ENCODE				1, 2							ENCFF001TDO, ENCFF624XKD, ENCFF950LOX, ENCFF974XKH	1336347	ENCODE Processing Pipeline	7e9fff1df0984cd791bec85be62f671a		https://www.encodeproject.org/files/ENCFF708GMO/@@download/ENCFF708GMO.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF814REB	bed narrowPeak	optimal idr thresholded peaks	ENCSR009TKN	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				RCOR1-human	DNA					False	2017-06-15	ENCODE				1, 2							ENCFF001TDO, ENCFF031DVG, ENCFF310CYQ, ENCFF479KRR	527913	ENCODE Processing Pipeline	02e8d555302bf4688d6bf86a850b6e8d		https://www.encodeproject.org/files/ENCFF814REB/@@download/ENCFF814REB.bed.gz	hg19			released	low read length, antibody characterized with exemption			
ENCFF530ZTE	bed narrowPeak	optimal idr thresholded peaks	ENCSR541WQI	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				MAFK-human	DNA					False	2014-07-07	ENCODE				2, 3							ENCFF001TDO, ENCFF171KTF, ENCFF433MKF, ENCFF973PJK	1217890	ENCODE Processing Pipeline	2cb07e62a7925de227e413eedd005c61		https://www.encodeproject.org/files/ENCFF530ZTE/@@download/ENCFF530ZTE.bed.gz	hg19			released		experiment not submitted to GEO	partially characterized antibody	
ENCFF168HHB	bed narrowPeak	optimal idr thresholded peaks	ENCSR882ZTS	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				eGFP-ZBTB11-human	DNA				formaldehyde	False	2016-10-07	ENCODE				1, 2							ENCFF001TDO, ENCFF125NRW, ENCFF469FSE, ENCFF541CCM	431630	ENCODE Processing Pipeline	fabd7ac2458cd379262c7fb71586ee75		https://www.encodeproject.org/files/ENCFF168HHB/@@download/ENCFF168HHB.bed.gz	hg19			released	low read depth, missing genetic modification characterization			missing control alignments
ENCFF924XFS	bed narrowPeak	optimal idr thresholded peaks	ENCSR634OAQ	ChIP-seq	EFO:0001221	NCI-H929	cell line	Homo sapiens				CTCF-human	DNA					False	2017-11-29	ENCODE				1, 2							ENCFF001TDO, ENCFF086DEW, ENCFF750EJJ, ENCFF848FMM	1016167	ENCODE Processing Pipeline	18e6e79e3172d18987ed0ed4bcf0426a		https://www.encodeproject.org/files/ENCFF924XFS/@@download/ENCFF924XFS.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF403SBB	bed narrowPeak	optimal idr thresholded peaks	ENCSR541AMF	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				CTCF-human	DNA					False	2017-11-13	ENCODE				1, 2							ENCFF001TDO, ENCFF040XUI, ENCFF399EZO, ENCFF519MIS	1050603	ENCODE Processing Pipeline	0e395f73816b021cc996d73f8b1fa49c		https://www.encodeproject.org/files/ENCFF403SBB/@@download/ENCFF403SBB.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO		
ENCFF503SZB	bed narrowPeak	optimal idr thresholded peaks	ENCSR422ZAO	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				IRF3-human	DNA					False	2016-11-10	ENCODE				2, 3							ENCFF001TDO, ENCFF253SCW, ENCFF360UWJ, ENCFF910MED	18928	ENCODE Processing Pipeline	2aea4dec6d18664385af8d5c9fd590ef		https://www.encodeproject.org/files/ENCFF503SZB/@@download/ENCFF503SZB.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance			
ENCFF236XBR	bed narrowPeak	optimal idr thresholded peaks	ENCSR350ORK	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				GABPA-human	DNA					False	2016-09-09	ENCODE				1, 2							ENCFF001TDO, ENCFF030PHB, ENCFF314VOK, ENCFF808RKL	106579	ENCODE Processing Pipeline	738397904efa4a1ce7b50f6bca1fb8ef		https://www.encodeproject.org/files/ENCFF236XBR/@@download/ENCFF236XBR.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF002CUX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVQ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TCF7L2-human	DNA		see document	see document		False	2011-10-29	ENCODE												66265	ENCODE Consortium Analysis Working Group	48217ad1de947d3aa04bab64adba7682		https://www.encodeproject.org/files/ENCFF002CUX/@@download/ENCFF002CUX.bed.gz	hg19			released	low read length	biological replicates with identical biosample, missing derived_from		
ENCFF002CKD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQI	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2012-02-29	ENCODE												351541	ENCODE Consortium Analysis Working Group	e5c7bb9a3ee8ae83426bb3a49cfd9370		https://www.encodeproject.org/files/ENCFF002CKD/@@download/ENCFF002CKD.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth, severe bottlenecking	
ENCFF471HCD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQI	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF073ACH, ENCFF721KHE, ENCFF774DWR	315269	ENCODE Processing Pipeline	9811f9d239aa6af3db6a129dcb21b892		https://www.encodeproject.org/files/ENCFF471HCD/@@download/ENCFF471HCD.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth, severe bottlenecking	
ENCFF002CVA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVR	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2011-10-29	ENCODE												6190	ENCODE Consortium Analysis Working Group	6d6e5c16bf06e488b8933b0b01da6aee		https://www.encodeproject.org/files/ENCFF002CVA/@@download/ENCFF002CVA.bed.gz	hg19			released	inconsistent platforms	biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CID	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZBTB33-human	DNA		see document	see document		False	2011-07-18	ENCODE												45250	ENCODE Consortium Analysis Working Group	aba4f859bb9144077368e422a7f84b12		https://www.encodeproject.org/files/ENCFF002CID/@@download/ENCFF002CID.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF394CWJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZBTB33-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF141WKX, ENCFF372FLW, ENCFF891ZCM	44775	ENCODE Processing Pipeline	1e1ef221679ba28140cc4103b3ab4bb6		https://www.encodeproject.org/files/ENCFF394CWJ/@@download/ENCFF394CWJ.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF939TZS	bed narrowPeak	optimal idr thresholded peaks	ENCSR897MMC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				JUNB-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF236WSQ, ENCFF294GPL, ENCFF332JOV	594939	ENCODE Processing Pipeline	9d4f96a2a04e052aa45a02e3702c33d5		https://www.encodeproject.org/files/ENCFF939TZS/@@download/ENCFF939TZS.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption			
ENCFF311LEU	bed narrowPeak	optimal idr thresholded peaks	ENCSR518WPL	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NR2F6-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF289JSG, ENCFF524UVY, ENCFF649MCA	533877	ENCODE Processing Pipeline	ecc965b347f5de0a0f97d0a66178b5ab		https://www.encodeproject.org/files/ENCFF311LEU/@@download/ENCFF311LEU.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF223YXP	bed narrowPeak	optimal idr thresholded peaks	ENCSR997GPO	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				NFRKB-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF026UVT, ENCFF079EBS, ENCFF327WVX	45043	ENCODE Processing Pipeline	7759e7359a29237473e4bdd33e0ea03e		https://www.encodeproject.org/files/ENCFF223YXP/@@download/ENCFF223YXP.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity			
ENCFF002DCR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTI	ChIP-seq	CL:0000746	cardiac muscle cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HKJ, ENCFF001HKP	1008976	ENCODE Consortium Analysis Working Group	a940b25f9df0e1d4537b3d03d4b2859f		https://www.encodeproject.org/files/ENCFF002DCR/@@download/ENCFF002DCR.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth			
ENCFF266GGD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTI	ChIP-seq	CL:0000746	cardiac muscle cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF504WUQ, ENCFF574BPV, ENCFF883SBZ	763849	ENCODE Processing Pipeline	0676fa28175caf0322d3a91f2a8ff9f1		https://www.encodeproject.org/files/ENCFF266GGD/@@download/ENCFF266GGD.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth			
ENCFF002CZE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOZ	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	ethanol	0.01 percent	36.0 hour	STAT3-human	DNA		see document	see document		False	2011-10-29	ENCODE												280558	ENCODE Consortium Analysis Working Group	1ddd6ed315bed89eeefb5a854d2662f6		https://www.encodeproject.org/files/ENCFF002CZE/@@download/ENCFF002CZE.bed.gz	hg19			archived	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, missing genetic modification characterization, low read depth	biological replicates with identical biosample, missing derived_from	insufficient read depth, severe bottlenecking	
ENCFF807JAC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOZ	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	ethanol	0.01 percent	36.0 hour	STAT3-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF113OOA, ENCFF487XXM, ENCFF715ZPN	254705	ENCODE Processing Pipeline	a129bf26832d975432ee1772843b584d		https://www.encodeproject.org/files/ENCFF807JAC/@@download/ENCFF807JAC.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, missing genetic modification characterization, low read depth	biological replicates with identical biosample	insufficient read depth, severe bottlenecking	
ENCFF997RPK	bed narrowPeak	optimal idr thresholded peaks	ENCSR551ZDZ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MTA2-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF512TAK, ENCFF665QYO, ENCFF827YDE	21178	ENCODE Processing Pipeline	5327f9e036270e1e5ae60827f370090e		https://www.encodeproject.org/files/ENCFF997RPK/@@download/ENCFF997RPK.bed.gz	hg19			released	borderline replicate concordance			
ENCFF002CKO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNJ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				HNF4G-human	DNA		see document	see document		False	2011-07-18	ENCODE												453401	ENCODE Consortium Analysis Working Group	0161422718c3df687e5093500f560cca		https://www.encodeproject.org/files/ENCFF002CKO/@@download/ENCFF002CKO.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from		missing control alignments
ENCFF140ARE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNJ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				HNF4G-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF540FQF, ENCFF600JKB, ENCFF608NEP	417895	ENCODE Processing Pipeline	361cfa119c4ac6576c821f2a7dfb483f		https://www.encodeproject.org/files/ENCFF140ARE/@@download/ENCFF140ARE.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample		missing control alignments
ENCFF002DBR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNC	ChIP-seq	CL:0000312	keratinocyte	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												1288633	ENCODE Consortium Analysis Working Group	b19f9819dee4cce3c29d258c816d897c		https://www.encodeproject.org/files/ENCFF002DBR/@@download/ENCFF002DBR.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF226MQR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNC	ChIP-seq	CL:0000312	keratinocyte	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF680MAX, ENCFF705JDO, ENCFF974JVU	777450	ENCODE Processing Pipeline	88ccad5203a63876e6a75b360b38c092		https://www.encodeproject.org/files/ENCFF226MQR/@@download/ENCFF226MQR.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF242IWJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR189TRZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TCF12-human	DNA					False	2016-07-08	ENCODE				1, 2							ENCFF001TDO, ENCFF436EEZ, ENCFF627NVL, ENCFF777QKF	294099	ENCODE Processing Pipeline	a3a1e5f8f633db2836973205f624314e		https://www.encodeproject.org/files/ENCFF242IWJ/@@download/ENCFF242IWJ.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF002CHI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-07-18	ENCODE												115128	ENCODE Consortium Analysis Working Group	0258dfcc5a886fb896f9f4e633e299dd		https://www.encodeproject.org/files/ENCFF002CHI/@@download/ENCFF002CHI.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient replicate concordance	
ENCFF302XID	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF043OJL, ENCFF804LKJ, ENCFF901YUN	74253	ENCODE Processing Pipeline	86772eabea3fb88597077cba207fc9b3		https://www.encodeproject.org/files/ENCFF302XID/@@download/ENCFF302XID.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample	insufficient read depth, insufficient replicate concordance	
ENCFF723RSX	bed narrowPeak	optimal idr thresholded peaks	ENCSR051OUX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFATC3-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF596YYO, ENCFF607MDM, ENCFF631AZA	249584	ENCODE Processing Pipeline	d4f82f8346e6cfaeeea5dffc52df893e		https://www.encodeproject.org/files/ENCFF723RSX/@@download/ENCFF723RSX.bed.gz	hg19			released	mild to moderate bottlenecking	experiment not submitted to GEO	partially characterized antibody	
ENCFF434QZL	bed narrowPeak	optimal idr thresholded peaks	ENCSR331GDC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZBTB11-human	DNA					False	2016-06-28	ENCODE				1, 2							ENCFF001TDO, ENCFF416FBH, ENCFF429ZJG, ENCFF929FJI	128593	ENCODE Processing Pipeline	4f90e8cc9263cacf63e92bbbf564133f		https://www.encodeproject.org/files/ENCFF434QZL/@@download/ENCFF434QZL.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity, antibody characterized with exemption			
ENCFF065UFF	bed narrowPeak	optimal idr thresholded peaks	ENCSR391JII	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				RCOR1-human	DNA					False	2016-06-14	ENCODE				3, 4							ENCFF001TDO, ENCFF804UPE, ENCFF833DXW, ENCFF836PMF	168014	ENCODE Processing Pipeline	d14e3ffe1f613e32c10a0348cc8affca		https://www.encodeproject.org/files/ENCFF065UFF/@@download/ENCFF065UFF.bed.gz	hg19			released	low read depth			
ENCFF002CXF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MXI1-human	DNA		see document	see document		False	2011-10-29	ENCODE												167844	ENCODE Consortium Analysis Working Group	ad39164396d52a0f2553d28532d80f58		https://www.encodeproject.org/files/ENCFF002CXF/@@download/ENCFF002CXF.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF970LCB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MXI1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF400DMX, ENCFF408TRC, ENCFF492QMD	161913	ENCODE Processing Pipeline	5fde622a545fc7d9f4edabddd920274c		https://www.encodeproject.org/files/ENCFF970LCB/@@download/ENCFF970LCB.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CPW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZL	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZNF143-human	DNA		see document	see document		False	2011-10-29	ENCODE												478466	ENCODE Consortium Analysis Working Group	01f2af5399bd0b982e3d3b88e66168bc		https://www.encodeproject.org/files/ENCFF002CPW/@@download/ENCFF002CPW.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from	control insufficient read depth, insufficient replicate concordance	
ENCFF141SAU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZL	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZNF143-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF046WGV, ENCFF420LVZ, ENCFF704WHY	660604	ENCODE Processing Pipeline	8b9eb2c39e56a1197433faf476328b10		https://www.encodeproject.org/files/ENCFF141SAU/@@download/ENCFF141SAU.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample	control insufficient read depth, insufficient replicate concordance	
ENCFF002CPA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EAG	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens	tumor necrosis factor	25 ng/mL	6 hour	RELA-human	DNA		see document	see document		False	2012-05-14	ENCODE												414083	ENCODE Consortium Analysis Working Group	536e19e1527ff5f05e1cbf59582972ff		https://www.encodeproject.org/files/ENCFF002CPA/@@download/ENCFF002CPA.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CMB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HDAC2-human	DNA		see document	see document		False	2011-07-18	ENCODE												128678	ENCODE Consortium Analysis Working Group	fe645c91ac33d4e3222a007677d53650		https://www.encodeproject.org/files/ENCFF002CMB/@@download/ENCFF002CMB.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking	missing derived_from, biological replicates with identical biosample	poor library complexity, severe bottlenecking	extremely low read depth
ENCFF667HLC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HDAC2-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF246ENE, ENCFF336UZW, ENCFF735NAF	160465	ENCODE Processing Pipeline	ee3222ea4ba9e0e28d04252bf3caeb15		https://www.encodeproject.org/files/ENCFF667HLC/@@download/ENCFF667HLC.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking	biological replicates with identical biosample	poor library complexity, severe bottlenecking	extremely low read depth
ENCFF002CGA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPF	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	TAF1-human	DNA		see document	see document		False	2012-02-29	ENCODE												214826	ENCODE Consortium Analysis Working Group	e55575f1e1335ada6952246bd80535a1		https://www.encodeproject.org/files/ENCFF002CGA/@@download/ENCFF002CGA.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, borderline replicate concordance	missing derived_from, biological replicates with identical biosample		
ENCFF747LKL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPF	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	TAF1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF371XXQ, ENCFF515ZED, ENCFF606JSI	306040	ENCODE Processing Pipeline	be3c3a4fe3dfd0512da67a296562eff7		https://www.encodeproject.org/files/ENCFF747LKL/@@download/ENCFF747LKL.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, borderline replicate concordance	biological replicates with identical biosample		
ENCFF002CGG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPZ	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	ZBTB33-human	DNA		see document	see document		False	2012-02-29	ENCODE												182974	ENCODE Consortium Analysis Working Group	35e7864c26166b091a0d73cec1ae8595		https://www.encodeproject.org/files/ENCFF002CGG/@@download/ENCFF002CGG.bed.gz	hg19			archived	low read length	biological replicates with identical biosample, missing derived_from		
ENCFF639NGJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPZ	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	ZBTB33-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF213KTM, ENCFF327NKC, ENCFF903RWE	201332	ENCODE Processing Pipeline	fa24c935ecf2f82e6f2a303a812a5730		https://www.encodeproject.org/files/ENCFF639NGJ/@@download/ENCFF639NGJ.bed.gz	hg19			released	low read length	biological replicates with identical biosample		
ENCFF002DDG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DVI	ChIP-seq	CL:0002586	retinal pigment epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HRO, ENCFF001HRS	1184350	ENCODE Consortium Analysis Working Group	129a0f5bb7fcab4c455672663f493192		https://www.encodeproject.org/files/ENCFF002DDG/@@download/ENCFF002DDG.bed.gz	hg19			archived	control low read depth, low read length, low read depth, inconsistent platforms			
ENCFF139DOR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DVI	ChIP-seq	CL:0002586	retinal pigment epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF412BGE, ENCFF647XYZ, ENCFF695UND	908206	ENCODE Processing Pipeline	0a252ead988d04608f92e283a28c1b6c		https://www.encodeproject.org/files/ENCFF139DOR/@@download/ENCFF139DOR.bed.gz	hg19			released	control low read depth, low read length, low read depth, inconsistent platforms			
ENCFF002CQV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBY	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				MYC-human	DNA		see document	see document		False	2012-05-14	ENCODE												119712	ENCODE Consortium Analysis Working Group	6571f69723eb01caa7da53909fe4b27b		https://www.encodeproject.org/files/ENCFF002CQV/@@download/ENCFF002CQV.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF569IGP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBY	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				MYC-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF164IAN, ENCFF241JSX, ENCFF808TOG	118663	ENCODE Processing Pipeline	c21c11458242075faf796af2b64d9804		https://www.encodeproject.org/files/ENCFF569IGP/@@download/ENCFF569IGP.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DCZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUM	ChIP-seq	EFO:0005710	HFF-Myc	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HOF, ENCFF001HOK	907794	ENCODE Consortium Analysis Working Group	b733a057cca5f0d58d39b49e4d4999ef		https://www.encodeproject.org/files/ENCFF002DCZ/@@download/ENCFF002DCZ.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking			missing control alignments
ENCFF282QFS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUM	ChIP-seq	EFO:0005710	HFF-Myc	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF211MMB, ENCFF683OHM, ENCFF777FSS	658629	ENCODE Processing Pipeline	5cb966acd351fac7cc8466d60a973372		https://www.encodeproject.org/files/ENCFF282QFS/@@download/ENCFF282QFS.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking			missing control alignments
ENCFF002CNK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BOZ	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2012-02-29	ENCODE												250627	ENCODE Consortium Analysis Working Group	fd4b8b1a0e1a4b5dad3863cfb09546b7		https://www.encodeproject.org/files/ENCFF002CNK/@@download/ENCFF002CNK.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF781PAL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BOZ	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF046BKR, ENCFF376SMA, ENCFF546CXR	296216	ENCODE Processing Pipeline	49f87a41db2a31840fd1bfc3d95f27f6		https://www.encodeproject.org/files/ENCFF781PAL/@@download/ENCFF781PAL.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF002CKY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLS	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-07-18	ENCODE												1262235	ENCODE Consortium Analysis Working Group	78cc5c13e7d3c26e1d83abdcaea59804		https://www.encodeproject.org/files/ENCFF002CKY/@@download/ENCFF002CKY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF072UEX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLS	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF020QWB, ENCFF374LID, ENCFF415ZQD	944041	ENCODE Processing Pipeline	1ff2fbb867b1a9a4b26928036292ae06		https://www.encodeproject.org/files/ENCFF072UEX/@@download/ENCFF072UEX.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF495MHZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FCC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFE2-human	DNA		see document	see document		False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF552ZAY, ENCFF803FZY, ENCFF813HVG	486318	ENCODE Processing Pipeline	7a79922b588af54d6245ba1711aac16f		https://www.encodeproject.org/files/ENCFF495MHZ/@@download/ENCFF495MHZ.bed.gz	hg19			released	low read depth, antibody characterized with exemption			
ENCFF002CJT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKD	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE												360295	ENCODE Consortium Analysis Working Group	4b11a8fb4cb32982db9903bb88c63fd5		https://www.encodeproject.org/files/ENCFF002CJT/@@download/ENCFF002CJT.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	missing derived_from, biological replicates with identical biosample		
ENCFF686VJY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKD	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF052MDZ, ENCFF535RGW, ENCFF654AYS	425021	ENCODE Processing Pipeline	528631c3a11fa1a1f12c9340d582e94c		https://www.encodeproject.org/files/ENCFF686VJY/@@download/ENCFF686VJY.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002CRA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUP	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				MAX-human	DNA		see document	see document		False	2011-10-29	ENCODE												233658	ENCODE Consortium Analysis Working Group	4202c09bf17472b546e9289570a6f946		https://www.encodeproject.org/files/ENCFF002CRA/@@download/ENCFF002CRA.bed.gz	hg19			archived	borderline replicate concordance	missing derived_from, biological replicates with identical biosample	insufficient read length	extremely low read depth
ENCFF668VNS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUP	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				MAX-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF056RFC, ENCFF566JIH, ENCFF667ZFL	94566	ENCODE Processing Pipeline	d5e88944c656337613f322a78d3b9172		https://www.encodeproject.org/files/ENCFF668VNS/@@download/ENCFF668VNS.bed.gz	hg19			released	borderline replicate concordance	biological replicates with identical biosample	insufficient read length	extremely low read depth
ENCFF699ZII	bed narrowPeak	optimal idr thresholded peaks	ENCSR429QPP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				FOXM1-human	DNA					False	2017-01-27	ENCODE				1, 2							ENCFF001TDO, ENCFF804EPQ, ENCFF805KEB, ENCFF847FHY	287070	ENCODE Processing Pipeline	4775f57db3e59a973c0c857c17c0de9b		https://www.encodeproject.org/files/ENCFF699ZII/@@download/ENCFF699ZII.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF708LCH	bed narrowPeak	optimal idr thresholded peaks	ENCSR996DUT	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				JUN-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF155WKH, ENCFF716DUT, ENCFF967FLQ	31888	ENCODE Processing Pipeline	707010bb7e38adb0fb4b076267d2cc41		https://www.encodeproject.org/files/ENCFF708LCH/@@download/ENCFF708LCH.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, antibody characterized with exemption			
ENCFF002CGS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BCL3-human	DNA		see document	see document		False	2011-07-18	ENCODE												300102	ENCODE Consortium Analysis Working Group	1fa40f4212396dbecc511b3a3a361c40		https://www.encodeproject.org/files/ENCFF002CGS/@@download/ENCFF002CGS.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF625SHY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BCL3-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF017OSU, ENCFF255RCD, ENCFF306BBY	357177	ENCODE Processing Pipeline	27296c76fc5b23b80e229644883fa76d		https://www.encodeproject.org/files/ENCFF625SHY/@@download/ENCFF625SHY.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF083YCQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR731LHZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				E4F1-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF249GYD, ENCFF713DFK, ENCFF952KDF	454049	ENCODE Processing Pipeline	6f611b81e2e1ca4ecaa174c4c3617412		https://www.encodeproject.org/files/ENCFF083YCQ/@@download/ENCFF083YCQ.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth	experiment not submitted to GEO, out of date analysis	partially characterized antibody	
ENCFF750JOB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLB	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF010JFS, ENCFF093PHA, ENCFF471HFA	59329	ENCODE Processing Pipeline	be4b0fd390fa5e9646dcb71a49dd1488		https://www.encodeproject.org/files/ENCFF750JOB/@@download/ENCFF750JOB.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF575FVP	bed narrowPeak	optimal idr thresholded peaks	ENCSR038RXU	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				eGFP-GABPA-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF414XXU, ENCFF943DQA, ENCFF976XOX	61728	ENCODE Processing Pipeline	1794332ea2b9cca10525aae42a792c68		https://www.encodeproject.org/files/ENCFF575FVP/@@download/ENCFF575FVP.bed.gz	hg19			released	control low read depth, low read depth, missing genetic modification characterization			
ENCFF057EIS	bed narrowPeak	optimal idr thresholded peaks	ENCSR475SOC	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				eGFP-ELF1-human	DNA					False	2016-06-13	ENCODE				1, 2							ENCFF001TDO, ENCFF270GEP, ENCFF274KQN, ENCFF370CWB	64787	ENCODE Processing Pipeline	e08e1fcedfca858311582a55a685cbc9		https://www.encodeproject.org/files/ENCFF057EIS/@@download/ENCFF057EIS.bed.gz	hg19			released	missing genetic modification characterization			
ENCFF002CPR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TBP-human	DNA		see document	see document		False	2011-10-29	ENCODE												380865	ENCODE Consortium Analysis Working Group	76fd4d8cc7d5952f67c615f60a14afda		https://www.encodeproject.org/files/ENCFF002CPR/@@download/ENCFF002CPR.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF490VYC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TBP-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF052EPC, ENCFF054TZW, ENCFF113YPN	360409	ENCODE Processing Pipeline	83b95b0b1fe7e2d9274f754390afa39e		https://www.encodeproject.org/files/ENCFF490VYC/@@download/ENCFF490VYC.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CJY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMN	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE												207254	ENCODE Consortium Analysis Working Group	14614b562eba5f555233926b8a0d4db7		https://www.encodeproject.org/files/ENCFF002CJY/@@download/ENCFF002CJY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF932CSV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMN	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF129OMT, ENCFF623RZZ, ENCFF988BKX	196122	ENCODE Processing Pipeline	6f3de2bcbff211cb74b9c8d2fa8fcbb4		https://www.encodeproject.org/files/ENCFF932CSV/@@download/ENCFF932CSV.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth	
ENCFF002DCO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DSU	ChIP-seq	CL:0002606	astrocyte of the spinal cord	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HIY, ENCFF001HIZ	986802	ENCODE Consortium Analysis Working Group	799bc6c3af731285c238b6574d7adfe2		https://www.encodeproject.org/files/ENCFF002DCO/@@download/ENCFF002DCO.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms			
ENCFF312HCK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DSU	ChIP-seq	CL:0002606	astrocyte of the spinal cord	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF729AWY, ENCFF892VYV, ENCFF994JFX	765148	ENCODE Processing Pipeline	9dd0d6cf8e5d23c421e1eeffab57d9d4		https://www.encodeproject.org/files/ENCFF312HCK/@@download/ENCFF312HCK.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms			
ENCFF002CYA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SMC3-human	DNA		see document	see document		False	2011-10-29	ENCODE												539320	ENCODE Consortium Analysis Working Group	95bc0f5d20a06647d0aaa79420ee0dc4		https://www.encodeproject.org/files/ENCFF002CYA/@@download/ENCFF002CYA.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF041YQC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SMC3-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF041YJV, ENCFF714FTS, ENCFF892UIH	454792	ENCODE Processing Pipeline	2933d00ffe16c0f6bdc6e17cf2aa672e		https://www.encodeproject.org/files/ENCFF041YQC/@@download/ENCFF041YQC.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample	insufficient read depth	
ENCFF002DAG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DKN	ChIP-seq	EFO:0002782	H54	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												1314888	ENCODE Consortium Analysis Working Group	f34ed5e00d411207c10dfb09de833671		https://www.encodeproject.org/files/ENCFF002DAG/@@download/ENCFF002DAG.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF909JAZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DKN	ChIP-seq	EFO:0002782	H54	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF438LOQ, ENCFF618WVP, ENCFF835YPT	843442	ENCODE Processing Pipeline	8fa9219e1759affd4c0fc9fe6cdece07		https://www.encodeproject.org/files/ENCFF909JAZ/@@download/ENCFF909JAZ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample		
ENCFF002CHW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGE	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SRF-human	DNA		see document	see document		False	2011-07-18	ENCODE												184095	ENCODE Consortium Analysis Working Group	51328a96dd2d0fa59860316ae77b9b4b		https://www.encodeproject.org/files/ENCFF002CHW/@@download/ENCFF002CHW.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF199WGD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGE	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SRF-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF339GTZ, ENCFF613VCR, ENCFF972PDN	55949	ENCODE Processing Pipeline	edc30706d0e012b4c150f744cbd30f3f		https://www.encodeproject.org/files/ENCFF199WGD/@@download/ENCFF199WGD.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF002CTU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDY	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				BRCA1-human	DNA		see document	see document		False	2011-10-29	ENCODE												41157	ENCODE Consortium Analysis Working Group	4e3339d5fd7fc75a651eaf7949e2f4af		https://www.encodeproject.org/files/ENCFF002CTU/@@download/ENCFF002CTU.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF775PPJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDY	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				BRCA1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF698OHI, ENCFF884QMQ, ENCFF890UER	39567	ENCODE Processing Pipeline	275c0cb5c6eb3e6d2abcb295077fbb51		https://www.encodeproject.org/files/ENCFF775PPJ/@@download/ENCFF775PPJ.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CKI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMO	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOXA1-human	DNA		see document	see document		False	2011-07-18	ENCODE												1006721	ENCODE Consortium Analysis Working Group	435af70b9e131037c1925fb19659d220		https://www.encodeproject.org/files/ENCFF002CKI/@@download/ENCFF002CKI.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from	insufficient read depth	missing control alignments
ENCFF978IWS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMO	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOXA1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF251GTF, ENCFF596END, ENCFF997MQT	846246	ENCODE Processing Pipeline	7762c6c6fa31a9c99ee27eedaac3b89f		https://www.encodeproject.org/files/ENCFF978IWS/@@download/ENCFF978IWS.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth	missing control alignments
ENCFF002CPS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUL	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NR2C2-human	DNA		see document	see document		False	2011-10-29	ENCODE												34405	ENCODE Consortium Analysis Working Group	be45adf93388769e6fecf0357e511b77		https://www.encodeproject.org/files/ENCFF002CPS/@@download/ENCFF002CPS.bed.gz	hg19			archived	borderline replicate concordance, low read depth	missing derived_from	control insufficient read depth, insufficient read length	
ENCFF721FTG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUL	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NR2C2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF258YSG, ENCFF423FMQ, ENCFF973NBX	20872	ENCODE Processing Pipeline	abe930e6ea87a09befc3de1e721f6948		https://www.encodeproject.org/files/ENCFF721FTG/@@download/ENCFF721FTG.bed.gz	hg19			released	borderline replicate concordance, low read depth		control insufficient read depth, insufficient read length	
ENCFF002DDL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DWN	ChIP-seq	EFO:0002798	NB4	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1							ENCFF001HUI	726401	ENCODE Consortium Analysis Working Group	8424eaf10728844d829f289c279d647d		https://www.encodeproject.org/files/ENCFF002DDL/@@download/ENCFF002DDL.bed.gz	hg19			archived	low read length, low read depth			
ENCFF002CHC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MEF2A-human	DNA		see document	see document		False	2011-07-18	ENCODE												341744	ENCODE Consortium Analysis Working Group	54631587162d50440ad8b95c7c7e85c5		https://www.encodeproject.org/files/ENCFF002CHC/@@download/ENCFF002CHC.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF328QLX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MEF2A-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF099ZTD, ENCFF951TLZ, ENCFF980AUY	367975	ENCODE Processing Pipeline	cff7dbd079130eb4d37ffab592deaa84		https://www.encodeproject.org/files/ENCFF328QLX/@@download/ENCFF328QLX.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CTM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVN	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				NR2C2-human	DNA		see document	see document		False	2011-10-29	ENCODE												54026	ENCODE Consortium Analysis Working Group	52ff4a1ff05aae193e3ef1b3b89c71a9		https://www.encodeproject.org/files/ENCFF002CTM/@@download/ENCFF002CTM.bed.gz	hg19			released	inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CQJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBD	ChIP-seq	EFO:0005349	GM18951	cell line	Homo sapiens	tumor necrosis factor	25 ng/mL	6 hour	RELA-human	DNA		see document	see document		False	2011-10-29	ENCODE												334901	ENCODE Consortium Analysis Working Group	4de97ae097a0b7753657d415a0886a00		https://www.encodeproject.org/files/ENCFF002CQJ/@@download/ENCFF002CQJ.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CLF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJG	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TCF12-human	DNA		see document	see document		False	2011-07-18	ENCODE												52120	ENCODE Consortium Analysis Working Group	cf726c8c2b2cdf3ccdfcb4232d5f3431		https://www.encodeproject.org/files/ENCFF002CLF/@@download/ENCFF002CLF.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient replicate concordance	
ENCFF940BIM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJG	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TCF12-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF080AEE, ENCFF549YBI, ENCFF682QML	82467	ENCODE Processing Pipeline	ef10ea189b4f938947aaadfa6b6f4e84		https://www.encodeproject.org/files/ENCFF940BIM/@@download/ENCFF940BIM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient replicate concordance	
ENCFF002DBK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMO	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE												1204700	ENCODE Consortium Analysis Working Group	0cbea058963fdb97803bd31b4d28039b		https://www.encodeproject.org/files/ENCFF002DBK/@@download/ENCFF002DBK.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	poor library complexity	
ENCFF372SHI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMO	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF569FYX, ENCFF657PRI, ENCFF731UAI	1035407	ENCODE Processing Pipeline	68a0e176e9543319f5c7a612b4098c88		https://www.encodeproject.org/files/ENCFF372SHI/@@download/ENCFF372SHI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	poor library complexity	
ENCFF002CVI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFH	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF000YDD, ENCFF000YDE	927902	ENCODE Consortium Analysis Working Group	657bd8cabd9ba234ac3cd467071a665a		https://www.encodeproject.org/files/ENCFF002CVI/@@download/ENCFF002CVI.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF593MEB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFH	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF399JDJ, ENCFF497YWO, ENCFF886HLJ	821055	ENCODE Processing Pipeline	038696f5c8018caee2117388898f53fd		https://www.encodeproject.org/files/ENCFF593MEB/@@download/ENCFF593MEB.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DCK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRR	ChIP-seq	EFO:0001161	GM12874	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HGN, ENCFF001HGS	728006	ENCODE Consortium Analysis Working Group	daec8fe2e58bc51274a177715c9898b6		https://www.encodeproject.org/files/ENCFF002DCK/@@download/ENCFF002DCK.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity		insufficient read depth	
ENCFF446MKT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRR	ChIP-seq	EFO:0001161	GM12874	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF445XBY, ENCFF653LVL, ENCFF961AGO	645559	ENCODE Processing Pipeline	6e25d6e01e8d314d42456184df9c22c7		https://www.encodeproject.org/files/ENCFF446MKT/@@download/ENCFF446MKT.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity		insufficient read depth	
ENCFF002CHU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJE	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SIX5-human	DNA		see document	see document		False	2011-07-18	ENCODE												99895	ENCODE Consortium Analysis Working Group	c85b1e6990282d9fb581b19de053c875		https://www.encodeproject.org/files/ENCFF002CHU/@@download/ENCFF002CHU.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from	severe bottlenecking	
ENCFF606WUV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJE	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SIX5-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF491NVT, ENCFF557TKJ, ENCFF771CBA	91820	ENCODE Processing Pipeline	f5cc0ab0fab5aa90cb4d068d46f09c70		https://www.encodeproject.org/files/ENCFF606WUV/@@download/ENCFF606WUV.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	severe bottlenecking	
ENCFF002CEC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARE	ChIP-seq	CL:0002327	mammary epithelial cell	primary cell	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE												114062	ENCODE Consortium Analysis Working Group	9ad516bd083ae2f12703ee84eb62c55d		https://www.encodeproject.org/files/ENCFF002CEC/@@download/ENCFF002CEC.bed.gz	hg19			archived	low read length, borderline replicate concordance, inconsistent platforms	missing derived_from		
ENCFF743FCW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARE	ChIP-seq	CL:0002327	mammary epithelial cell	primary cell	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE				1, 2							ENCFF001TDO, ENCFF015WVN, ENCFF357WXQ, ENCFF385LJM	144063	ENCODE Processing Pipeline	3dfb5f076fde87b7896b22f33633d866		https://www.encodeproject.org/files/ENCFF743FCW/@@download/ENCFF743FCW.bed.gz	hg19			released	low read length, borderline replicate concordance, inconsistent platforms			
ENCFF517YCC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CUX1-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF599SPU, ENCFF675GZY, ENCFF725FYI	119496	ENCODE Processing Pipeline	2b856671dd29071ba3eec1e8a4e8f69d		https://www.encodeproject.org/files/ENCFF517YCC/@@download/ENCFF517YCC.bed.gz	hg19			released	low read length, inconsistent target of control experiment	biological replicates with identical biosample		missing control alignments
ENCFF002CHJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				PAX5-human	DNA		see document	see document		False	2011-07-18	ENCODE												489675	ENCODE Consortium Analysis Working Group	92fda2a5af18eacb65aacdddbd0021ed		https://www.encodeproject.org/files/ENCFF002CHJ/@@download/ENCFF002CHJ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF339KUO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				PAX5-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF252RWC, ENCFF565JQY, ENCFF915CCU	371645	ENCODE Processing Pipeline	6e212171131e6ee7f7d1bc41c78a0c29		https://www.encodeproject.org/files/ENCFF339KUO/@@download/ENCFF339KUO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF002CFG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPS	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	ATF3-human	DNA		see document	see document		False	2012-02-29	ENCODE												171585	ENCODE Consortium Analysis Working Group	855e1ac06f0ade38ebf68e24b50e1240		https://www.encodeproject.org/files/ENCFF002CFG/@@download/ENCFF002CFG.bed.gz	hg19			archived	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF913MUA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPS	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	ATF3-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF247OWV, ENCFF524QEN, ENCFF556COW	193791	ENCODE Processing Pipeline	88ca13499d91733e358e058e7c845c7c		https://www.encodeproject.org/files/ENCFF913MUA/@@download/ENCFF913MUA.bed.gz	hg19			released	low read length	biological replicates with identical biosample		
ENCFF474KHR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BOX	ChIP-seq	EFO:0005234	PFSK-1	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF655RQF, ENCFF851EOI, ENCFF859NJV	317492	ENCODE Processing Pipeline	54db63fc2e1d8bdcef504e2e0453ac68		https://www.encodeproject.org/files/ENCFF474KHR/@@download/ENCFF474KHR.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample		missing control alignments
ENCFF002CSW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDJ	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				NRF1-human	DNA		see document	see document		False	2011-10-29	ENCODE												70752	ENCODE Consortium Analysis Working Group	766b48fd144a543f7d0430424014f1c2		https://www.encodeproject.org/files/ENCFF002CSW/@@download/ENCFF002CSW.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CFN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQO	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	FOSL2-human	DNA		see document	see document		False	2012-02-29	ENCODE												690173	ENCODE Consortium Analysis Working Group	880d3868aaf5aefbafbb19364ada7b71		https://www.encodeproject.org/files/ENCFF002CFN/@@download/ENCFF002CFN.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking	biological replicates with identical biosample, missing derived_from		missing control alignments
ENCFF374ZCG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQO	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	FOSL2-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF431AIS, ENCFF912FKQ, ENCFF925WYW	548131	ENCODE Processing Pipeline	7fcebc7d804196dc801fd7220e7c96b9		https://www.encodeproject.org/files/ENCFF374ZCG/@@download/ENCFF374ZCG.bed.gz	hg19			released	low read length, mild to moderate bottlenecking	biological replicates with identical biosample		missing control alignments
ENCFF002CFU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQP	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	REST-human	DNA		see document	see document		False	2012-02-29	ENCODE												277807	ENCODE Consortium Analysis Working Group	76aa22412831088c081ae5917f94bc40		https://www.encodeproject.org/files/ENCFF002CFU/@@download/ENCFF002CFU.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking	biological replicates with identical biosample, missing derived_from		
ENCFF136RBA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQP	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	REST-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF621APS, ENCFF719IGT, ENCFF792BHA	334443	ENCODE Processing Pipeline	ca1ab14e6137d333433c3bb3c0d8b7bd		https://www.encodeproject.org/files/ENCFF136RBA/@@download/ENCFF136RBA.bed.gz	hg19			released	low read length, mild to moderate bottlenecking	biological replicates with identical biosample		
ENCFF002CYC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		6.0 hour	STAT1-human	DNA		see document	see document		False	2011-10-29	ENCODE												37650	ENCODE Consortium Analysis Working Group	bb6587b53d0ad228531645c844e82661		https://www.encodeproject.org/files/ENCFF002CYC/@@download/ENCFF002CYC.bed.gz	hg19			archived	control low read depth, borderline replicate concordance	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	
ENCFF254MPF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		6.0 hour	STAT1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF081YAN, ENCFF873CLE, ENCFF881JMT	23891	ENCODE Processing Pipeline	cc0458db40e7d908cb8702d577c43933		https://www.encodeproject.org/files/ENCFF254MPF/@@download/ENCFF254MPF.bed.gz	hg19			released	control low read depth, borderline replicate concordance	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CGJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIY	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	estradiol	10 nM	1 hour	ESR1-human	DNA		see document	see document		False	2011-07-18	ENCODE												392007	ENCODE Consortium Analysis Working Group	9e0bebb6315e2ad5a66bd06d78e7107e		https://www.encodeproject.org/files/ENCFF002CGJ/@@download/ENCFF002CGJ.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF248QIW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIY	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	estradiol	10 nM	1 hour	ESR1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF607IFK, ENCFF657XCG, ENCFF895CZK	302156	ENCODE Processing Pipeline	a63a02eb5139b8b005ec17f233522dd5		https://www.encodeproject.org/files/ENCFF248QIW/@@download/ENCFF248QIW.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF755AXA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRD	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	FOXA1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF420TYJ, ENCFF591IMY, ENCFF605IMH	541926	ENCODE Processing Pipeline	7833f49f8263628cdb770c7d08714a7d		https://www.encodeproject.org/files/ENCFF755AXA/@@download/ENCFF755AXA.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF002CIT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIP	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				BCL11A-human	DNA		see document	see document		False	2011-07-18	ENCODE												52410	ENCODE Consortium Analysis Working Group	2c0c565a76897f3160d301f7ec998e47		https://www.encodeproject.org/files/ENCFF002CIT/@@download/ENCFF002CIT.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	missing derived_from		
ENCFF002CKF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIE	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-07-18	ENCODE												1191204	ENCODE Consortium Analysis Working Group	1377acce5b4f8944e3f6ca12debd45d0		https://www.encodeproject.org/files/ENCFF002CKF/@@download/ENCFF002CKF.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample		missing control alignments
ENCFF237OKO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIE	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF297IFU, ENCFF327TVJ, ENCFF487OYC	948053	ENCODE Processing Pipeline	13e337503a6a9deb5c4953281268d9fa		https://www.encodeproject.org/files/ENCFF237OKO/@@download/ENCFF237OKO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		missing control alignments
ENCFF002CUU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDW	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				SMC3-human	DNA		see document	see document		False	2011-10-29	ENCODE												780473	ENCODE Consortium Analysis Working Group	bcc4a60fb4007598f27ba82185075807		https://www.encodeproject.org/files/ENCFF002CUU/@@download/ENCFF002CUU.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF525EJQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDW	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				SMC3-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF382SIS, ENCFF620MYW, ENCFF672PNA	593833	ENCODE Processing Pipeline	1b4f67a75954ebc5d1390e20bb29420b		https://www.encodeproject.org/files/ENCFF525EJQ/@@download/ENCFF525EJQ.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002COK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZJ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BHLHE40-human	DNA		see document	see document		False	2011-10-29	ENCODE												326289	ENCODE Consortium Analysis Working Group	100a70ef09b8815c8809ed9b799cd078		https://www.encodeproject.org/files/ENCFF002COK/@@download/ENCFF002COK.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	duplicate lane review, missing derived_from, biological replicates with identical biosample		
ENCFF853SOB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZJ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BHLHE40-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF354WUJ, ENCFF512QTF, ENCFF909EYB	407249	ENCODE Processing Pipeline	d964abe4d5ff7ce20874db90631d395f		https://www.encodeproject.org/files/ENCFF853SOB/@@download/ENCFF853SOB.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	duplicate lane review, biological replicates with identical biosample		
ENCFF002CWO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ELK1-human	DNA		see document	see document		False	2012-08-20	ENCODE												71329	ENCODE Consortium Analysis Working Group	512f15c00d79972570f34a368bb388d7		https://www.encodeproject.org/files/ENCFF002CWO/@@download/ENCFF002CWO.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	duplicate lane review, missing derived_from, biological replicates with identical biosample		
ENCFF019PEL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ELK1-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF324CAS, ENCFF390VNW, ENCFF670YGF	72723	ENCODE Processing Pipeline	6bef1c87b6be232eb240e302cc14670d		https://www.encodeproject.org/files/ENCFF019PEL/@@download/ENCFF019PEL.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	duplicate lane review, biological replicates with identical biosample		
ENCFF002CYP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				USF2-human	DNA		see document	see document		False	2011-10-29	ENCODE												82850	ENCODE Consortium Analysis Working Group	23baed3c990373140369f62e3ea7b8d4		https://www.encodeproject.org/files/ENCFF002CYP/@@download/ENCFF002CYP.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF150VTD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				USF2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF129CHM, ENCFF505EIB, ENCFF935ZZG	66396	ENCODE Processing Pipeline	374d6db908c4b58361da86e304486f3d		https://www.encodeproject.org/files/ENCFF150VTD/@@download/ENCFF150VTD.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DCY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUH	ChIP-seq	CL:1001608	foreskin fibroblast	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-02-29	ENCODE				1							ENCFF001HNZ	680211	ENCODE Consortium Analysis Working Group	e3c022ea9f7be7acf4d1ea7ccf3b03e6		https://www.encodeproject.org/files/ENCFF002DCY/@@download/ENCFF002DCY.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity			
ENCFF002CUI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDZ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF000XTW, ENCFF000XTX	941711	ENCODE Consortium Analysis Working Group	f5175a370266f5313c26591a5795d246		https://www.encodeproject.org/files/ENCFF002CUI/@@download/ENCFF002CUI.bed.gz	hg19			archived	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF800XTT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDZ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF227YDJ, ENCFF422YLS, ENCFF700LQD	806864	ENCODE Processing Pipeline	438973c4146937122e69e33c208d92a0		https://www.encodeproject.org/files/ENCFF800XTT/@@download/ENCFF800XTT.bed.gz	hg19			released	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF048JKT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGF	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF022KXM, ENCFF562ZXJ, ENCFF632AEM	104093	ENCODE Processing Pipeline	821185bde94cd93d206c629d07774040		https://www.encodeproject.org/files/ENCFF048JKT/@@download/ENCFF048JKT.bed.gz	hg19			released	low read length, low read depth, mixed read lengths	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CHR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMY	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-07-18	ENCODE												784543	ENCODE Consortium Analysis Working Group	7ddac173d34f70fa26a89f569581c19f		https://www.encodeproject.org/files/ENCFF002CHR/@@download/ENCFF002CHR.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF753RGL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMY	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF436OWU, ENCFF510UIU, ENCFF601GLM	688110	ENCODE Processing Pipeline	c297cd9f39ea9fa917cc79632b77b70d		https://www.encodeproject.org/files/ENCFF753RGL/@@download/ENCFF753RGL.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CUW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEL	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TBP-human	DNA		see document	see document		False	2011-10-29	ENCODE												347532	ENCODE Consortium Analysis Working Group	cdaf88adfab80c521ffb5893d3aa8f32		https://www.encodeproject.org/files/ENCFF002CUW/@@download/ENCFF002CUW.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF584CNF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEL	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TBP-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF469IRK, ENCFF791JVM, ENCFF967KDT	324761	ENCODE Processing Pipeline	f69505c8d4f6d551de135c08ff65c0d3		https://www.encodeproject.org/files/ENCFF584CNF/@@download/ENCFF584CNF.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CXI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGR	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFYA-human	DNA		see document	see document		False	2011-10-29	ENCODE												97329	ENCODE Consortium Analysis Working Group	59e4f965b7bd0a75446915be7160aa9b		https://www.encodeproject.org/files/ENCFF002CXI/@@download/ENCFF002CXI.bed.gz	hg19			archived	mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	extremely low read depth
ENCFF012VES	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGR	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFYA-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF003WYE, ENCFF690KLI, ENCFF711NWL	77635	ENCODE Processing Pipeline	ead81452d9d50afa34b4539574d408f5		https://www.encodeproject.org/files/ENCFF012VES/@@download/ENCFF012VES.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample	insufficient read depth, insufficient read length	extremely low read depth
ENCFF002CYU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2011-10-29	ENCODE												47845	ENCODE Consortium Analysis Working Group	fc3a851a27dfec1fdf9cd1eab0a216e3		https://www.encodeproject.org/files/ENCFF002CYU/@@download/ENCFF002CYU.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF344QKL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF479ZWB, ENCFF854CCF, ENCFF904PBE	56693	ENCODE Processing Pipeline	e1dcb354f98030f0cad5ea10cb6b8428		https://www.encodeproject.org/files/ENCFF344QKL/@@download/ENCFF344QKL.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample		
ENCFF002CYR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF143-human	DNA		see document	see document		False	2011-10-29	ENCODE												686281	ENCODE Consortium Analysis Working Group	0a9d8e90c7bf4abb3e7a2e3320eba6b3		https://www.encodeproject.org/files/ENCFF002CYR/@@download/ENCFF002CYR.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF114IWY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF143-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF178ANU, ENCFF971SGR, ENCFF984KWO	507074	ENCODE Processing Pipeline	2080efa4f0591f3162e78e92da027eb5		https://www.encodeproject.org/files/ENCFF114IWY/@@download/ENCFF114IWY.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF195PBG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ESRRA-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF430QIK, ENCFF894NTO, ENCFF927WFK	93614	ENCODE Processing Pipeline	3efe3e9ba0dd7bc225ff4fec1d74a0a8		https://www.encodeproject.org/files/ENCFF195PBG/@@download/ENCFF195PBG.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CYW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOP	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	afimoxifene	1.0 μM	12.0 hour	FOS-human	DNA		see document	see document		False	2012-05-14	ENCODE												1772744	ENCODE Consortium Analysis Working Group	f97dcb21fe0f2a4472eb1ab11b495967		https://www.encodeproject.org/files/ENCFF002CYW/@@download/ENCFF002CYW.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization	biological replicates with identical biosample, missing derived_from, duplicate lane review		
ENCFF111IPG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOP	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	afimoxifene	1.0 μM	12.0 hour	FOS-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF177VFU, ENCFF245IKC, ENCFF364ZNH	1625733	ENCODE Processing Pipeline	46234c121cddbc9360b1cf51d8a0bc48		https://www.encodeproject.org/files/ENCFF111IPG/@@download/ENCFF111IPG.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity, missing genetic modification characterization	biological replicates with identical biosample, duplicate lane review		
ENCFF244DQW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DLG	ChIP-seq	EFO:0005352	GM20000	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF128FLJ, ENCFF192ODH, ENCFF780CML	438676	ENCODE Processing Pipeline	0c21dfd74bd1ff0c763735b180ac1d59		https://www.encodeproject.org/files/ENCFF244DQW/@@download/ENCFF244DQW.bed.gz	hg19			released	control low read depth, mild to moderate bottlenecking	biological replicates with identical biosample	insufficient read depth	missing control alignments
ENCFF002DBL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DML	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE												1161292	ENCODE Consortium Analysis Working Group	ea48635d4b9f9f1045e967c2f5e54d78		https://www.encodeproject.org/files/ENCFF002DBL/@@download/ENCFF002DBL.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF474NLG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFN	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HCFC1-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF317AIN, ENCFF386FIZ, ENCFF912AHN	236039	ENCODE Processing Pipeline	fe108db88c03657b64f8b0ec52bd7c3e		https://www.encodeproject.org/files/ENCFF474NLG/@@download/ENCFF474NLG.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CMX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE												477726	ENCODE Consortium Analysis Working Group	ad2e68ab363f735a8ae9c4144c611460		https://www.encodeproject.org/files/ENCFF002CMX/@@download/ENCFF002CMX.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient replicate concordance	
ENCFF328XKC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF223XFI, ENCFF701OSU, ENCFF720DVS	497639	ENCODE Processing Pipeline	01d30b98e8410f018839a27847bfd7fc		https://www.encodeproject.org/files/ENCFF328XKC/@@download/ENCFF328XKC.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	insufficient read depth, insufficient replicate concordance	
ENCFF002CUT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RFX5-human	DNA		see document	see document		False	2011-10-29	ENCODE												157443	ENCODE Consortium Analysis Working Group	c10b815febb8b315038eb377878d4075		https://www.encodeproject.org/files/ENCFF002CUT/@@download/ENCFF002CUT.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		missing control alignments
ENCFF933GHY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RFX5-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF003GUP, ENCFF304RUP, ENCFF777PZJ	138519	ENCODE Processing Pipeline	27647aa248b0cf30ae4671167b3b5fa0		https://www.encodeproject.org/files/ENCFF933GHY/@@download/ENCFF933GHY.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		missing control alignments
ENCFF002DBH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMJ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2012-08-27	ENCODE												177271	ENCODE Consortium Analysis Working Group	d814e2e5ed7d55614384b4e9cdee9a55		https://www.encodeproject.org/files/ENCFF002DBH/@@download/ENCFF002DBH.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF021KDL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMJ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF341DDR, ENCFF373LWH, ENCFF808TOF	179969	ENCODE Processing Pipeline	806e8f646a0ceaa45c7766f5667a367e		https://www.encodeproject.org/files/ENCFF021KDL/@@download/ENCFF021KDL.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF499QUE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLL	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	ESR1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF372ATJ, ENCFF593GDN, ENCFF664LLB	67651	ENCODE Processing Pipeline	f67dc576679a3b4f475e5598c9bf2068		https://www.encodeproject.org/files/ENCFF499QUE/@@download/ENCFF499QUE.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample	insufficient replicate concordance	
ENCFF706SJZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF384-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF319WWO, ENCFF722BEI, ENCFF913KLO	354973	ENCODE Processing Pipeline	8b78ea00785bf7a9dc6f64503042fe49		https://www.encodeproject.org/files/ENCFF706SJZ/@@download/ENCFF706SJZ.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CZR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXH	ChIP-seq	EFO:0005236	NT2/D1	cell line	Homo sapiens				SUZ12-human	DNA		see document	see document		False	2011-10-29	ENCODE												70181	ENCODE Consortium Analysis Working Group	2af0fe77853dcb21e8352e43c17f29c0		https://www.encodeproject.org/files/ENCFF002CZR/@@download/ENCFF002CZR.bed.gz	hg19			archived		biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	extremely low read depth
ENCFF841RSF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXH	ChIP-seq	EFO:0005236	NT2/D1	cell line	Homo sapiens				SUZ12-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF203YKR, ENCFF258BUQ, ENCFF259PLY	114990	ENCODE Processing Pipeline	f775fe62ab6cbe2bfc618f009a319d9b		https://www.encodeproject.org/files/ENCFF841RSF/@@download/ENCFF841RSF.bed.gz	hg19			released		biological replicates with identical biosample	insufficient read depth, insufficient read length	extremely low read depth
ENCFF002CPB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNN	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFYA-human	DNA		see document	see document		False	2011-10-29	ENCODE												48248	ENCODE Consortium Analysis Working Group	d951149e467a73e4637f374a626b67bb		https://www.encodeproject.org/files/ENCFF002CPB/@@download/ENCFF002CPB.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF414JLN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNN	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFYA-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF063ESL, ENCFF333CPM, ENCFF423EOR	21975	ENCODE Processing Pipeline	151656e4361aa7092b6b3591b2f30ddb		https://www.encodeproject.org/files/ENCFF414JLN/@@download/ENCFF414JLN.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF867ERM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DND	ChIP-seq	UBERON:0001264	pancreas	tissue	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF329BNL, ENCFF417BGF, ENCFF427RBA	506571	ENCODE Processing Pipeline	5db1c38f26beabf07a70b2a3a8e67817		https://www.encodeproject.org/files/ENCFF867ERM/@@download/ENCFF867ERM.bed.gz	hg19			released	control low read depth, mild to moderate bottlenecking			extremely low read depth, missing control alignments
ENCFF002DDE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DVA	ChIP-seq	CL:0002553	fibroblast of lung	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HQS, ENCFF001HQU	1047705	ENCODE Consortium Analysis Working Group	14aa397f7b3c83831889aed668d4fa68		https://www.encodeproject.org/files/ENCFF002DDE/@@download/ENCFF002DDE.bed.gz	hg19			archived	control low read depth, low read length, low read depth, inconsistent platforms			
ENCFF570FLB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DVA	ChIP-seq	CL:0002553	fibroblast of lung	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF129FBO, ENCFF213JJM, ENCFF519REF	763178	ENCODE Processing Pipeline	86c192815799a1a048cd599e0a046fe5		https://www.encodeproject.org/files/ENCFF570FLB/@@download/ENCFF570FLB.bed.gz	hg19			released	control low read depth, low read length, low read depth, inconsistent platforms			
ENCFF002CKB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKE	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ATF3-human	DNA		see document	see document		False	2011-07-18	ENCODE												83386	ENCODE Consortium Analysis Working Group	8db7f95c02a98255bad497b3abcab3d2		https://www.encodeproject.org/files/ENCFF002CKB/@@download/ENCFF002CKB.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF857YVK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKE	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ATF3-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF291WLP, ENCFF414JVR, ENCFF725ZKM	73270	ENCODE Processing Pipeline	9b4d7d6214441c243d20fe05b2418338		https://www.encodeproject.org/files/ENCFF857YVK/@@download/ENCFF857YVK.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF002CUV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEO	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens	insulin and 22-hydroxycholesterol		6.0 hour	SREBF1-human	DNA		see document	see document		False	2011-10-29	ENCODE												69298	ENCODE Consortium Analysis Working Group	1ce43dcd4aef03944a74077ca1acebe5		https://www.encodeproject.org/files/ENCFF002CUV/@@download/ENCFF002CUV.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CJA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMT	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				NANOG-human	DNA		see document	see document		False	2011-07-18	ENCODE												108870	ENCODE Consortium Analysis Working Group	85375df67cc6902a9b09a7f7537c81f4		https://www.encodeproject.org/files/ENCFF002CJA/@@download/ENCFF002CJA.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms	biological replicates with identical biosample, missing derived_from	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF379EPK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMT	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				NANOG-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF482QCD, ENCFF537QBW, ENCFF637UCH	146369	ENCODE Processing Pipeline	7ca39501c1ae70ddd76818ac016a1ea6		https://www.encodeproject.org/files/ENCFF379EPK/@@download/ENCFF379EPK.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms	biological replicates with identical biosample	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF002CIW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNS	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				FOSL1-human	DNA		see document	see document		False	2011-07-18	ENCODE												23367	ENCODE Consortium Analysis Working Group	87b3080e3d4809021de0b609dfd15d90		https://www.encodeproject.org/files/ENCFF002CIW/@@download/ENCFF002CIW.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF418RZE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNS	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				FOSL1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF338LQY, ENCFF754FCZ, ENCFF823FFU	22674	ENCODE Processing Pipeline	545aadabf867370d3f560aacd02b24a1		https://www.encodeproject.org/files/ENCFF418RZE/@@download/ENCFF418RZE.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF881YDR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNI	ChIP-seq	UBERON:0002106	spleen	tissue	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF250AFB, ENCFF307XCC, ENCFF310RCE	616195	ENCODE Processing Pipeline	57dc061a40055e9cafafda1448190a37		https://www.encodeproject.org/files/ENCFF881YDR/@@download/ENCFF881YDR.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, moderate library complexity		control insufficient read depth, insufficient read depth	missing control alignments
ENCFF002CPY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZZZ3-human	DNA		see document	see document		False	2011-10-29	ENCODE												20659	ENCODE Consortium Analysis Working Group	ad7ed1123e1ab6fe0617cc27f0cc7b59		https://www.encodeproject.org/files/ENCFF002CPY/@@download/ENCFF002CPY.bed.gz	hg19			archived	low read depth	biological replicates with identical biosample, missing derived_from	control insufficient read depth, insufficient read length	
ENCFF310XJC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZZZ3-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF063ECO, ENCFF833VKG, ENCFF908NXJ	11888	ENCODE Processing Pipeline	c74d3fcbe69e36a64d3a973909d60c6a		https://www.encodeproject.org/files/ENCFF310XJC/@@download/ENCFF310XJC.bed.gz	hg19			released	low read depth	biological replicates with identical biosample	control insufficient read depth, insufficient read length	
ENCFF002CGO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQK	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ATF2-human	DNA		see document	see document		False	2012-02-29	ENCODE												464879	ENCODE Consortium Analysis Working Group	1c594a9c3fd87caf450bd1216464eb34		https://www.encodeproject.org/files/ENCFF002CGO/@@download/ENCFF002CGO.bed.gz	hg19			archived	low read length, inconsistent platforms	biological replicates with identical biosample, missing derived_from		
ENCFF609KOY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQK	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ATF2-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF071BNB, ENCFF378GKG, ENCFF599NQC	516541	ENCODE Processing Pipeline	64817c03f12a08a77eb97b9c2fabe83d		https://www.encodeproject.org/files/ENCFF609KOY/@@download/ENCFF609KOY.bed.gz	hg19			released	low read length, inconsistent platforms	biological replicates with identical biosample		
ENCFF002DBD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE												1077102	ENCODE Consortium Analysis Working Group	691e48b1344e23067ee35e35c640d364		https://www.encodeproject.org/files/ENCFF002DBD/@@download/ENCFF002DBD.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read depth, insufficient read length	extremely low read depth
ENCFF002CVS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BRF2-human	DNA		see document	see document		False	2011-10-29	ENCODE												29151	ENCODE Consortium Analysis Working Group	f075234fcb2722a9724e3854f969ff0b		https://www.encodeproject.org/files/ENCFF002CVS/@@download/ENCFF002CVS.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CZI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPB	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	afimoxifene	1.0 μM	36.0 hour	STAT3-human	DNA		see document	see document		False	2011-10-29	ENCODE												888680	ENCODE Consortium Analysis Working Group	93572c874a066b8042857a6ef1951f7a		https://www.encodeproject.org/files/ENCFF002CZI/@@download/ENCFF002CZI.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF255XVM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPB	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	afimoxifene	1.0 μM	36.0 hour	STAT3-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF496UPK, ENCFF691LNH, ENCFF819FYL	850994	ENCODE Processing Pipeline	07b01799230f5ce63cae89d51b676ccb		https://www.encodeproject.org/files/ENCFF255XVM/@@download/ENCFF255XVM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CTS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDP	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ARID3A-human	DNA		see document	see document		False	2012-05-14	ENCODE												450874	ENCODE Consortium Analysis Working Group	96ddd1511875610833d9f48a8d8656ed		https://www.encodeproject.org/files/ENCFF002CTS/@@download/ENCFF002CTS.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF514OYL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDP	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ARID3A-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF287ZJM, ENCFF542DWV, ENCFF723URK	413265	ENCODE Processing Pipeline	1b3c1634fb8c0f173c3d5f60070ce2e3		https://www.encodeproject.org/files/ENCFF514OYL/@@download/ENCFF514OYL.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DAD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNA	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE												1165527	ENCODE Consortium Analysis Working Group	3315f9544c1bfca99b7e9de28d0d5313		https://www.encodeproject.org/files/ENCFF002DAD/@@download/ENCFF002DAD.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF300IYQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNA	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF290ZCZ, ENCFF537TSK, ENCFF865ANK	693513	ENCODE Processing Pipeline	654e0d3526208ce14b7a33232e365a5a		https://www.encodeproject.org/files/ENCFF300IYQ/@@download/ENCFF300IYQ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample		
ENCFF002CQU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECA	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE												58360	ENCODE Consortium Analysis Working Group	eee0c531e65f9eb949a28b0641f87ffa		https://www.encodeproject.org/files/ENCFF002CQU/@@download/ENCFF002CQU.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF402ELS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECA	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF115XCV, ENCFF622NKF, ENCFF961BTT	48603	ENCODE Processing Pipeline	1840846ef482a55692abf6313aec1279		https://www.encodeproject.org/files/ENCFF402ELS/@@download/ENCFF402ELS.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CRI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECD	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				USF2-human	DNA		see document	see document		False	2011-10-29	ENCODE												179232	ENCODE Consortium Analysis Working Group	94400560a37b1ac2bf50a0a09a410928		https://www.encodeproject.org/files/ENCFF002CRI/@@download/ENCFF002CRI.bed.gz	hg19			archived	low read length, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF749OBU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECD	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				USF2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF019JVF, ENCFF264NVN, ENCFF846OWC	152905	ENCODE Processing Pipeline	4b435ca82f521bf3df4bfd0f305c0d06		https://www.encodeproject.org/files/ENCFF749OBU/@@download/ENCFF749OBU.bed.gz	hg19			released	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DDO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DWY	ChIP-seq	CL:0002553	fibroblast of lung	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-02-29	ENCODE				1							ENCFF001HVT	711922	ENCODE Consortium Analysis Working Group	bc64fef4c49c1c68c531c03381fb685f		https://www.encodeproject.org/files/ENCFF002DDO/@@download/ENCFF002DDO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth			
ENCFF002CJO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHO	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												424230	ENCODE Consortium Analysis Working Group	8c2f6676e4f0bfee35ce23fb53b922e8		https://www.encodeproject.org/files/ENCFF002CJO/@@download/ENCFF002CJO.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	missing derived_from, biological replicates with identical biosample		
ENCFF202SNU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHO	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF084XPA, ENCFF361YHU, ENCFF967ZPP	484992	ENCODE Processing Pipeline	80c3d936154d88a4a35c94bd1f3b8842		https://www.encodeproject.org/files/ENCFF202SNU/@@download/ENCFF202SNU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002COW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZF	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2012-05-14	ENCODE												324987	ENCODE Consortium Analysis Working Group	a923b6aa6919e536cb52d9f8be2487b4		https://www.encodeproject.org/files/ENCFF002COW/@@download/ENCFF002COW.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF083KVY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZF	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF173DKW, ENCFF694JRS, ENCFF974XPG	337281	ENCODE Processing Pipeline	951409976105220a24dc6e8cf17d2090		https://www.encodeproject.org/files/ENCFF083KVY/@@download/ENCFF083KVY.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DBZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPV	ChIP-seq	NTR:0000481	AG10803	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001GXX, ENCFF001GYE	993535	ENCODE Consortium Analysis Working Group	c3f6929e66ef953454d578c9d2204936		https://www.encodeproject.org/files/ENCFF002DBZ/@@download/ENCFF002DBZ.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms	NTR biosample		
ENCFF746CIL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPV	ChIP-seq	NTR:0000481	AG10803	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF025STW, ENCFF229WQW, ENCFF934ZVZ	805043	ENCODE Processing Pipeline	a854e71bdfcc17eb98e8c2ff896d8bbb		https://www.encodeproject.org/files/ENCFF746CIL/@@download/ENCFF746CIL.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms	NTR biosample		
ENCFF002CUM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEH	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NRF1-human	DNA		see document	see document		False	2011-10-29	ENCODE												52778	ENCODE Consortium Analysis Working Group	d5d6942ab0b56b0696a204cbee6d7d0a		https://www.encodeproject.org/files/ENCFF002CUM/@@download/ENCFF002CUM.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF972NIR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEH	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NRF1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF228KKV, ENCFF864QJF, ENCFF966VOH	38996	ENCODE Processing Pipeline	9279471da999b426ccbb6fc9df0cb304		https://www.encodeproject.org/files/ENCFF972NIR/@@download/ENCFF972NIR.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002COU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUJ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				IKZF1-human	DNA		see document	see document		False	2012-05-14	ENCODE												242594	ENCODE Consortium Analysis Working Group	4b26f9f15c2b8820c627e516850e9802		https://www.encodeproject.org/files/ENCFF002COU/@@download/ENCFF002COU.bed.gz	hg19			archived	low read length, low read depth	missing derived_from	control insufficient read depth	
ENCFF073XZC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUJ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				IKZF1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF330XDW, ENCFF723VGS, ENCFF742JAC	239645	ENCODE Processing Pipeline	1e25bdbd10c76538c1fc79f86e4ff09f		https://www.encodeproject.org/files/ENCFF073XZC/@@download/ENCFF073XZC.bed.gz	hg19			released	low read length, low read depth		control insufficient read depth	
ENCFF002CYT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2011-10-29	ENCODE												7610	ENCODE Consortium Analysis Working Group	b832826c9a2c89cd02efba3c468be676		https://www.encodeproject.org/files/ENCFF002CYT/@@download/ENCFF002CYT.bed.gz	hg19			archived		missing derived_from, biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF836LBG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF337RTD, ENCFF556HBG, ENCFF565OZP	7351	ENCODE Processing Pipeline	ee40819a3e319921e26d72427860725d		https://www.encodeproject.org/files/ENCFF836LBG/@@download/ENCFF836LBG.bed.gz	hg19			released		biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF319HLW	bed narrowPeak	optimal idr thresholded peaks	ENCSR618ICR	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				RCOR1-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF105LXO, ENCFF348XCJ, ENCFF821INE	14457	ENCODE Processing Pipeline	13a3b524ef8f07cfa68348b0e7880fa3		https://www.encodeproject.org/files/ENCFF319HLW/@@download/ENCFF319HLW.bed.gz	hg19			released	file validation error, low read length, low read depth, antibody characterized with exemption	mismatched file status		
ENCFF002CNQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLY	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	RAD21-human	DNA		see document	see document		False	2011-07-18	ENCODE												1253872	ENCODE Consortium Analysis Working Group	61137ce7d04dfac964b972832c1c0de4		https://www.encodeproject.org/files/ENCFF002CNQ/@@download/ENCFF002CNQ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF874PNQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLY	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	RAD21-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF114SKT, ENCFF758GUY, ENCFF846NCI	1108510	ENCODE Processing Pipeline	6578f7d35c36ea6f9b39a78cd0131e2d		https://www.encodeproject.org/files/ENCFF874PNQ/@@download/ENCFF874PNQ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF002CSO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDF	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				IRF3-human	DNA		see document	see document		False	2011-10-29	ENCODE												42861	ENCODE Consortium Analysis Working Group	61be13789db82a32b707fa71aa317854		https://www.encodeproject.org/files/ENCFF002CSO/@@download/ENCFF002CSO.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CPN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZP	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SMC3-human	DNA		see document	see document		False	2011-10-29	ENCODE												746137	ENCODE Consortium Analysis Working Group	a2acdd468555c5743295f7d2f82fab6c		https://www.encodeproject.org/files/ENCFF002CPN/@@download/ENCFF002CPN.bed.gz	hg19			archived	low read length, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF686FLD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZP	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SMC3-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF027ZKP, ENCFF246ZRW, ENCFF249QCH	573680	ENCODE Processing Pipeline	bba9c26b2d0c073aaa60505f9cfdb10b		https://www.encodeproject.org/files/ENCFF686FLD/@@download/ENCFF686FLD.bed.gz	hg19			released	low read length, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CIX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIW	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				GABPA-human	DNA		see document	see document		False	2011-07-18	ENCODE												113527	ENCODE Consortium Analysis Working Group	9b30d396b2ae6ddbbc58f47f039335b7		https://www.encodeproject.org/files/ENCFF002CIX/@@download/ENCFF002CIX.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF894MNP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIW	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				GABPA-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF027RYJ, ENCFF352YTI, ENCFF814FEG	169751	ENCODE Processing Pipeline	35b95ff5dd3e74989c0a226c380141bd		https://www.encodeproject.org/files/ENCFF894MNP/@@download/ENCFF894MNP.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CDS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AMF	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1							ENCFF000AVI, ENCFF000AVK	1381027	ENCODE Consortium Analysis Working Group	5042afb91f822356fa7b9d16c6d94e94		https://www.encodeproject.org/files/ENCFF002CDS/@@download/ENCFF002CDS.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms			
ENCFF002CSR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECN	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2012-05-14	ENCODE												742112	ENCODE Consortium Analysis Working Group	4e2babbda793ba249e6f4ed5048b3462		https://www.encodeproject.org/files/ENCFF002CSR/@@download/ENCFF002CSR.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CNR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMF	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												381400	ENCODE Consortium Analysis Working Group	2b841aa96ef5710fd1b227e9c8ab262d		https://www.encodeproject.org/files/ENCFF002CNR/@@download/ENCFF002CNR.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF588NYF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMF	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF110YHD, ENCFF481EBP, ENCFF872MXG	359763	ENCODE Processing Pipeline	dd7204e1356625205a7ae66985c33cd6		https://www.encodeproject.org/files/ENCFF588NYF/@@download/ENCFF588NYF.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CNS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLZ	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE												382176	ENCODE Consortium Analysis Working Group	47f8ab33c05f0a60dc591d3254061600		https://www.encodeproject.org/files/ENCFF002CNS/@@download/ENCFF002CNS.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF958LUB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLZ	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF008AIJ, ENCFF310NCC, ENCFF477NKZ	402582	ENCODE Processing Pipeline	3865699116468e4950ef588d5cb2ba3e		https://www.encodeproject.org/files/ENCFF958LUB/@@download/ENCFF958LUB.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002CKA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHT	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												346694	ENCODE Consortium Analysis Working Group	d2923dff41466751318a0e525898a21d		https://www.encodeproject.org/files/ENCFF002CKA/@@download/ENCFF002CKA.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF305QDB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHT	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF533OIU, ENCFF558HCQ, ENCFF570CST	312444	ENCODE Processing Pipeline	212dacefd25c5361bc1b2e5400f36d9c		https://www.encodeproject.org/files/ENCFF305QDB/@@download/ENCFF305QDB.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth	
ENCFF002CVV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2011-10-29	ENCODE												892426	ENCODE Consortium Analysis Working Group	04e3941e0e52a83b13096436c6491a25		https://www.encodeproject.org/files/ENCFF002CVV/@@download/ENCFF002CVV.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF429XKT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF143EHM, ENCFF206BMO, ENCFF755NTM	766395	ENCODE Processing Pipeline	88c12b16ffd687378e1854b5f80644c8		https://www.encodeproject.org/files/ENCFF429XKT/@@download/ENCFF429XKT.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CWS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GTF2F1-human	DNA		see document	see document		False	2011-10-29	ENCODE												95959	ENCODE Consortium Analysis Working Group	3258cc485e176b5d51866301f5e00016		https://www.encodeproject.org/files/ENCFF002CWS/@@download/ENCFF002CWS.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF156WRH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GTF2F1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF123HUT, ENCFF220GLK, ENCFF614RPL	94699	ENCODE Processing Pipeline	3412d376260c85c185a7efc28f868928		https://www.encodeproject.org/files/ENCFF156WRH/@@download/ENCFF156WRH.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CVZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		6.0 hour	JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE												127221	ENCODE Consortium Analysis Working Group	8086db1d6870a8c9418dacda7340d3a7		https://www.encodeproject.org/files/ENCFF002CVZ/@@download/ENCFF002CVZ.bed.gz	hg19			archived	control low read depth	missing derived_from, biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF573GQX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		6.0 hour	JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF041POZ, ENCFF605EZB, ENCFF829NXG	84349	ENCODE Processing Pipeline	abed910a74ad73f3c1db21033f7275f3		https://www.encodeproject.org/files/ENCFF573GQX/@@download/ENCFF573GQX.bed.gz	hg19			released	control low read depth	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CWZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGN	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-10-29	ENCODE												788904	ENCODE Consortium Analysis Working Group	fc92c89774100278488f9604f2b41d14		https://www.encodeproject.org/files/ENCFF002CWZ/@@download/ENCFF002CWZ.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF337DKJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGN	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF159IRT, ENCFF367HPL, ENCFF844LUC	761693	ENCODE Processing Pipeline	3a2d773ef2c1c39f7ac48b0924f2febe		https://www.encodeproject.org/files/ENCFF337DKJ/@@download/ENCFF337DKJ.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CVP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BDP1-human	DNA		see document	see document		False	2011-10-29	ENCODE												14731	ENCODE Consortium Analysis Working Group	b7736965c422593b231caef94ba62e82		https://www.encodeproject.org/files/ENCFF002CVP/@@download/ENCFF002CVP.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF116EXQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR331HPA	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				GABPA-human	DNA					False	2014-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF304VXR, ENCFF379IZI, ENCFF636JXY	145088	ENCODE Processing Pipeline	54561d7676f209c4accf47a9d8d8dbda		https://www.encodeproject.org/files/ENCFF116EXQ/@@download/ENCFF116EXQ.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth, inconsistent platforms, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF030NYG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMI	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SRF-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF252ZSU, ENCFF256FUR, ENCFF694IUT	198820	ENCODE Processing Pipeline	bc1bb5c6d32dc9c8b9ce28c46e4b77e4		https://www.encodeproject.org/files/ENCFF030NYG/@@download/ENCFF030NYG.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CIV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJA	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				EGR1-human	DNA		see document	see document		False	2011-07-18	ENCODE												199154	ENCODE Consortium Analysis Working Group	0f9d09e6548dc05ba820e0b32d65e5bd		https://www.encodeproject.org/files/ENCFF002CIV/@@download/ENCFF002CIV.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth	missing derived_from, biological replicates with identical biosample		
ENCFF220IXP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJA	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				EGR1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF235LAV, ENCFF283VJO, ENCFF375CPS	205136	ENCODE Processing Pipeline	3264aafab10c53352fc8b19ad9cc0ac5		https://www.encodeproject.org/files/ENCFF220IXP/@@download/ENCFF220IXP.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth	biological replicates with identical biosample		
ENCFF617AHB	bed narrowPeak	optimal idr thresholded peaks	ENCSR945NFL	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				USF2-human	DNA					False	2017-06-15	ENCODE				1, 2							ENCFF001TDO, ENCFF168LBA, ENCFF680TFE, ENCFF982EXB	17167	ENCODE Processing Pipeline	2c2a17a597bd629f495146a50ff1ed9b		https://www.encodeproject.org/files/ENCFF617AHB/@@download/ENCFF617AHB.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, antibody characterized with exemption			
ENCFF002CVY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		30.0 minute	JUN-human	DNA		see document	see document		False	2012-05-14	ENCODE												217184	ENCODE Consortium Analysis Working Group	c226b910f32186397ea83661cc905568		https://www.encodeproject.org/files/ENCFF002CVY/@@download/ENCFF002CVY.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF077UYM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		30.0 minute	JUN-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF063HEH, ENCFF257FNC, ENCFF767GKW	166535	ENCODE Processing Pipeline	1bfdc3d3c368a4f534014f7554f50dcd		https://www.encodeproject.org/files/ENCFF077UYM/@@download/ENCFF077UYM.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF855HSK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DKR	ChIP-seq	EFO:0005335	GM10266	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF327KKL, ENCFF787CXT, ENCFF950YTB	520860	ENCODE Processing Pipeline	88e4bb9295bf0a07c811034ba0e4ed00		https://www.encodeproject.org/files/ENCFF855HSK/@@download/ENCFF855HSK.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	control insufficient read depth	missing control alignments
ENCFF002CSJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECI	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				ELK1-human	DNA		see document	see document		False	2012-05-14	ENCODE												128199	ENCODE Consortium Analysis Working Group	68b83db449782d8ce122a93a2d7a85b9		https://www.encodeproject.org/files/ENCFF002CSJ/@@download/ENCFF002CSJ.bed.gz	hg19			released	low read length	biological replicates with identical biosample, missing derived_from, duplicate lane review		
ENCFF002CYZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOS	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	ethanol	0.01 percent	36.0 hour	MYC-human	DNA		see document	see document		False	2012-05-14	ENCODE												673835	ENCODE Consortium Analysis Working Group	e507c5bba801a891bb1a2430b629aab3		https://www.encodeproject.org/files/ENCFF002CYZ/@@download/ENCFF002CYZ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization	missing derived_from, biological replicates with identical biosample		
ENCFF772PCI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOS	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	ethanol	0.01 percent	36.0 hour	MYC-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF190UWS, ENCFF485KEP, ENCFF660LCY	667279	ENCODE Processing Pipeline	480e952f21e9a364c2c650596739204d		https://www.encodeproject.org/files/ENCFF772PCI/@@download/ENCFF772PCI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization	biological replicates with identical biosample		
ENCFF002CRH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECB	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				TBP-human	DNA		see document	see document		False	2011-10-29	ENCODE												416950	ENCODE Consortium Analysis Working Group	332fae3b1be780d35e98ab5fa0783687		https://www.encodeproject.org/files/ENCFF002CRH/@@download/ENCFF002CRH.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF629MBV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECB	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				TBP-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF208DFV, ENCFF686GYI, ENCFF730GTB	395270	ENCODE Processing Pipeline	1461e05d9f74c404801d4b756e9f4c7e		https://www.encodeproject.org/files/ENCFF629MBV/@@download/ENCFF629MBV.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CVL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFY	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ARID3A-human	DNA		see document	see document		False	2012-05-14	ENCODE												209743	ENCODE Consortium Analysis Working Group	506383a9730f9b5869c629ba78084b51		https://www.encodeproject.org/files/ENCFF002CVL/@@download/ENCFF002CVL.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF835KAT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFY	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ARID3A-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF378JGJ, ENCFF411VNI, ENCFF732QKX	203969	ENCODE Processing Pipeline	61a07b9ac21ac0103491a01c337814c1		https://www.encodeproject.org/files/ENCFF835KAT/@@download/ENCFF835KAT.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample	insufficient read depth	
ENCFF002DDS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DXW	ChIP-seq	EFO:0005715	WERI-Rb-1	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HXV, ENCFF001HXX	962837	ENCODE Consortium Analysis Working Group	33fb2c5fb01abb7070faf899450686be		https://www.encodeproject.org/files/ENCFF002DDS/@@download/ENCFF002DDS.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms		insufficient read depth	
ENCFF924OMX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DXW	ChIP-seq	EFO:0005715	WERI-Rb-1	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF437VBU, ENCFF641GOK, ENCFF837XNW	890963	ENCODE Processing Pipeline	85e198d151d13048fd43f592ae2d1063		https://www.encodeproject.org/files/ENCFF924OMX/@@download/ENCFF924OMX.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms		insufficient read depth	
ENCFF002CJQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIT	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				TCF12-human	DNA		see document	see document		False	2011-07-18	ENCODE												151751	ENCODE Consortium Analysis Working Group	b2ae3c4f14cd0925547fce472ce96e1b		https://www.encodeproject.org/files/ENCFF002CJQ/@@download/ENCFF002CJQ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	missing derived_from, biological replicates with identical biosample	insufficient read depth	missing control alignments
ENCFF274AQE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIT	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				TCF12-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF143RTQ, ENCFF447CBR, ENCFF500IOB	194337	ENCODE Processing Pipeline	faca2edfad31759b309588367cc6d3bb		https://www.encodeproject.org/files/ENCFF274AQE/@@download/ENCFF274AQE.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth	missing control alignments
ENCFF862VFJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR027HML	ChIP-seq	EFO:0006711	OCI-LY7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2014-07-11	ENCODE				1, 2							ENCFF001TDO, ENCFF344EMX, ENCFF536OEM, ENCFF607FHS	1500244	ENCODE Processing Pipeline	3ea35f80ad188673c48542f634d09d79		https://www.encodeproject.org/files/ENCFF862VFJ/@@download/ENCFF862VFJ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity, mixed read lengths, antibody characterized with exemption	NTR biosample		
ENCFF002CSB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZE	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				FOS-human	DNA		see document	see document		False	2011-10-29	ENCODE												233892	ENCODE Consortium Analysis Working Group	d1cdae9ffcf36c5c0bd31a65c7f33126		https://www.encodeproject.org/files/ENCFF002CSB/@@download/ENCFF002CSB.bed.gz	hg19			released	inconsistent platforms	duplicate lane review, missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CQQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBX	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				BRCA1-human	DNA		see document	see document		False	2012-05-14	ENCODE												53948	ENCODE Consortium Analysis Working Group	51011e40936b048440f5f97f0de44638		https://www.encodeproject.org/files/ENCFF002CQQ/@@download/ENCFF002CQQ.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF658OOS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBX	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				BRCA1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF312BLK, ENCFF354QYP, ENCFF607PGS	36525	ENCODE Processing Pipeline	84b058d22a0501bc42a348af3a655419		https://www.encodeproject.org/files/ENCFF658OOS/@@download/ENCFF658OOS.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF544XKC	bed narrowPeak	optimal idr thresholded peaks	ENCSR115SMW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				PKNOX1-human	DNA					False	2016-06-14	ENCODE				1, 2							ENCFF001TDO, ENCFF279KYF, ENCFF572VXK, ENCFF967UHQ	884225	ENCODE Processing Pipeline	1be1447808c5db1b66e6c0b3f3cf0782		https://www.encodeproject.org/files/ENCFF544XKC/@@download/ENCFF544XKC.bed.gz	hg19			released				
ENCFF002DCC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DQI	ChIP-seq	EFO:0002779	BJ	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001GZL, ENCFF001GZP	877867	ENCODE Consortium Analysis Working Group	bb97df8c169ee43a57c4f9c008ecac67		https://www.encodeproject.org/files/ENCFF002DCC/@@download/ENCFF002DCC.bed.gz	hg19			archived	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth		insufficient read depth	
ENCFF649IRT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DQI	ChIP-seq	EFO:0002779	BJ	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF493VQC, ENCFF777VSN, ENCFF829XOU	747549	ENCODE Processing Pipeline	cff73f0abc942e1a9b0fc2c314cef00e		https://www.encodeproject.org/files/ENCFF649IRT/@@download/ENCFF649IRT.bed.gz	hg19			released	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth		insufficient read depth	
ENCFF002CGT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BCLAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												119918	ENCODE Consortium Analysis Working Group	cd8131abfae3d224d17aeabf9e7dd1f9		https://www.encodeproject.org/files/ENCFF002CGT/@@download/ENCFF002CGT.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF563QBC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BCLAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF590VTP, ENCFF591DYQ, ENCFF596IAY	384864	ENCODE Processing Pipeline	dbc8a781e1fbe9d3923a0952f41aab3f		https://www.encodeproject.org/files/ENCFF563QBC/@@download/ENCFF563QBC.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF586TYX	bed narrowPeak	optimal idr thresholded peaks	ENCSR261VAS	ChIP-seq	CL:0000192	smooth muscle cell	in vitro differentiated cells	Homo sapiens				CTCF-human	DNA					False	2017-12-03	ENCODE				1, 2							ENCFF001TDO, ENCFF339XVK, ENCFF343NOG, ENCFF456RUF	675274	ENCODE Processing Pipeline	2ac43f62ae79b7d5f01a73fcd51ae244		https://www.encodeproject.org/files/ENCFF586TYX/@@download/ENCFF586TYX.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, antibody characterized with exemption	NTR biosample, experiment not submitted to GEO	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF002CVO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGD	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BACH1-human	DNA		see document	see document		False	2012-05-14	ENCODE												101541	ENCODE Consortium Analysis Working Group	ffaad9c424d927abf310d20c1269cd5a		https://www.encodeproject.org/files/ENCFF002CVO/@@download/ENCFF002CVO.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF423EMU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGD	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BACH1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF091TOR, ENCFF107CCL, ENCFF276CQA	88613	ENCODE Processing Pipeline	4a5e60199fc2e91ed05449790c0ead65		https://www.encodeproject.org/files/ENCFF423EMU/@@download/ENCFF423EMU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DCA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPY	ChIP-seq	CL:0002547	fibroblast of the aortic adventitia	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001GYI, ENCFF001GYJ	922298	ENCODE Consortium Analysis Working Group	8098d23f2c7e0a7254a2d573249f4dbd		https://www.encodeproject.org/files/ENCFF002DCA/@@download/ENCFF002DCA.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms		insufficient read depth	
ENCFF859PRV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPY	ChIP-seq	CL:0002547	fibroblast of the aortic adventitia	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF005RNW, ENCFF241LIY, ENCFF567GAL	779989	ENCODE Processing Pipeline	43616394b9f92fa49f35482cff6b7155		https://www.encodeproject.org/files/ENCFF859PRV/@@download/ENCFF859PRV.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms		insufficient read depth	
ENCFF002CIS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKC	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				ATF3-human	DNA		see document	see document		False	2011-07-18	ENCODE												127804	ENCODE Consortium Analysis Working Group	ab173430c407cd66ebbf7626586208a7		https://www.encodeproject.org/files/ENCFF002CIS/@@download/ENCFF002CIS.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF305HBV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKC	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				ATF3-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF067KOU, ENCFF450PVT, ENCFF616DKI	92829	ENCODE Processing Pipeline	742a86a42182a571b8d1fb3cf02d9b7b		https://www.encodeproject.org/files/ENCFF305HBV/@@download/ENCFF305HBV.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth	
ENCFF851XSC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFF	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				MAZ-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF574TBH, ENCFF958APN, ENCFF978ATS	509179	ENCODE Processing Pipeline	c30f2d65f9f1570a7e3ee65baba3006e		https://www.encodeproject.org/files/ENCFF851XSC/@@download/ENCFF851XSC.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, inconsistent target of control experiment, low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002CPP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZV	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				STAT3-human	DNA		see document	see document		False	2011-10-29	ENCODE												171002	ENCODE Consortium Analysis Working Group	06b4dbcce351dd97c60552789fac7e28		https://www.encodeproject.org/files/ENCFF002CPP/@@download/ENCFF002CPP.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF014RBU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZV	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				STAT3-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF211SUY, ENCFF234PNC, ENCFF318RHH	135992	ENCODE Processing Pipeline	22bf3b30438a5ab0a401f82cf845218f		https://www.encodeproject.org/files/ENCFF014RBU/@@download/ENCFF014RBU.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CVN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ATF3-human	DNA		see document	see document		False	2011-10-29	ENCODE												30756	ENCODE Consortium Analysis Working Group	f96359d316397bebb076f46153d104bf		https://www.encodeproject.org/files/ENCFF002CVN/@@download/ENCFF002CVN.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CEH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ALA	ChIP-seq	CL:0002618	endothelial cell of umbilical vein	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE												766613	ENCODE Consortium Analysis Working Group	79618d0c39b6e86ab98478f10c438082		https://www.encodeproject.org/files/ENCFF002CEH/@@download/ENCFF002CEH.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, moderate library complexity	missing derived_from	insufficient read depth	
ENCFF002DCL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRU	ChIP-seq	EFO:0001162	GM12875	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HGZ, ENCFF001HHA	842741	ENCODE Consortium Analysis Working Group	07bb4f85501f023a001441bc56e9184d		https://www.encodeproject.org/files/ENCFF002DCL/@@download/ENCFF002DCL.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth	
ENCFF733YSO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRU	ChIP-seq	EFO:0001162	GM12875	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF046FAZ, ENCFF737TLI, ENCFF852LHB	648391	ENCODE Processing Pipeline	d2404a9f8ac0a0b865ac97ec3f6460e4		https://www.encodeproject.org/files/ENCFF733YSO/@@download/ENCFF733YSO.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth	
ENCFF002CHH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQS	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2012-02-29	ENCODE												143093	ENCODE Consortium Analysis Working Group	044de7bd595573dff64ec47830e92bf3		https://www.encodeproject.org/files/ENCFF002CHH/@@download/ENCFF002CHH.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF677KJB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQS	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF294FPR, ENCFF793WOV, ENCFF974PTU	109221	ENCODE Processing Pipeline	0c909169189fe56ee39c28dcf7ff48fa		https://www.encodeproject.org/files/ENCFF677KJB/@@download/ENCFF677KJB.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth	
ENCFF002DDJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DWE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HTC, ENCFF001HTD	869756	ENCODE Consortium Analysis Working Group	8e9f23cdfc27292f8fc0f0b302cd296a		https://www.encodeproject.org/files/ENCFF002DDJ/@@download/ENCFF002DDJ.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms		insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF002COT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ELK1-human	DNA		see document	see document		False	2012-05-14	ENCODE												149104	ENCODE Consortium Analysis Working Group	6aa06ce60d16b95212716e13ef16917d		https://www.encodeproject.org/files/ENCFF002COT/@@download/ENCFF002COT.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	duplicate lane review, missing derived_from, biological replicates with identical biosample		
ENCFF556JBS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ELK1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF304FFB, ENCFF457WBU, ENCFF839VSW	137008	ENCODE Processing Pipeline	8a3f9f934ad6fb0dc377fb2d047121b3		https://www.encodeproject.org/files/ENCFF556JBS/@@download/ENCFF556JBS.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	duplicate lane review, biological replicates with identical biosample		
ENCFF002CKK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNI	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOXA2-human	DNA		see document	see document		False	2011-07-18	ENCODE												809761	ENCODE Consortium Analysis Working Group	5840d498651082c22423bec2c0e12365		https://www.encodeproject.org/files/ENCFF002CKK/@@download/ENCFF002CKK.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking	biological replicates with identical biosample, missing derived_from	insufficient read depth, poor library complexity, insufficient replicate concordance, severe bottlenecking	
ENCFF002ROJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNI	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOXA2-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF767MET, ENCFF782XTI, ENCFF850ZXW	823038	ENCODE Processing Pipeline	5e3ca1038ebee9259751b5b2bc902c3a		https://www.encodeproject.org/files/ENCFF002ROJ/@@download/ENCFF002ROJ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking	biological replicates with identical biosample	insufficient read depth, poor library complexity, insufficient replicate concordance, severe bottlenecking	
ENCFF002COM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EYZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				FOS-human	DNA		see document	see document		False	2011-10-29	ENCODE												55234	ENCODE Consortium Analysis Working Group	f1d429a4e067d67537009d22f43162c8		https://www.encodeproject.org/files/ENCFF002COM/@@download/ENCFF002COM.bed.gz	hg19			released		duplicate lane review, biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CMR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												312494	ENCODE Consortium Analysis Working Group	c9a0dad556d6b26898d8aea60ac58f32		https://www.encodeproject.org/files/ENCFF002CMR/@@download/ENCFF002CMR.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity	missing derived_from, biological replicates with identical biosample	control insufficient read depth, insufficient read depth, severe bottlenecking	extremely low read depth, missing control alignments
ENCFF822FWM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF697OMD, ENCFF713KSL, ENCFF847XRL	317644	ENCODE Processing Pipeline	e0213c493c391ae380358cfc2d5a8490		https://www.encodeproject.org/files/ENCFF822FWM/@@download/ENCFF822FWM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	control insufficient read depth, insufficient read depth, severe bottlenecking	extremely low read depth, missing control alignments
ENCFF002CDW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AOA	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE												1041888	ENCODE Consortium Analysis Working Group	b72dd7d21c8e29fbd69c073cfded6de8		https://www.encodeproject.org/files/ENCFF002CDW/@@download/ENCFF002CDW.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from		
ENCFF768OPK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AOA	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1, 2							ENCFF001TDO, ENCFF474KGT, ENCFF652AZC, ENCFF915PWP	770935	ENCODE Processing Pipeline	37dbe73e85937bacc0dd37a6cd7e6353		https://www.encodeproject.org/files/ENCFF768OPK/@@download/ENCFF768OPK.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity			
ENCFF002CPE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				EP300-human	DNA					False	2012-05-14	ENCODE												442586	ENCODE Consortium Analysis Working Group	d418a64ce8855426c0c7e266c4950479		https://www.encodeproject.org/files/ENCFF002CPE/@@download/ENCFF002CPE.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent platforms, inconsistent target of control experiment	missing derived_from		
ENCFF222XPQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				EP300-human	DNA					False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF270RLY, ENCFF429WXC, ENCFF446MPR	352738	ENCODE Processing Pipeline	d8641f789549a9b495f93565e6cf3260		https://www.encodeproject.org/files/ENCFF222XPQ/@@download/ENCFF222XPQ.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent platforms, inconsistent target of control experiment			
ENCFF002COR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYY	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				E2F4-human	DNA		see document	see document		False	2012-05-14	ENCODE												91273	ENCODE Consortium Analysis Working Group	6c7a8a4cdae4db29921014968fe79a1f		https://www.encodeproject.org/files/ENCFF002COR/@@download/ENCFF002COR.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF433PFN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYY	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				E2F4-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF128GGA, ENCFF191NQS, ENCFF319MWF	85609	ENCODE Processing Pipeline	62c04d74d3bb8393fd21d79f6d87f4c0		https://www.encodeproject.org/files/ENCFF433PFN/@@download/ENCFF433PFN.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CIC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNP	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE												613066	ENCODE Consortium Analysis Working Group	0eccf0b1b1a664b0b0dcef0493189e47		https://www.encodeproject.org/files/ENCFF002CIC/@@download/ENCFF002CIC.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	missing derived_from, biological replicates with identical biosample		
ENCFF967ACD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNP	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF138XMK, ENCFF794ILD, ENCFF864PVD	602532	ENCODE Processing Pipeline	a52540d0d7e72164a332058a082387ee		https://www.encodeproject.org/files/ENCFF967ACD/@@download/ENCFF967ACD.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002DDA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUP	ChIP-seq	EFO:0002793	HL-60	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1							ENCFF001HOV	375499	ENCODE Consortium Analysis Working Group	2bc274678f574d811003c25e47864252		https://www.encodeproject.org/files/ENCFF002DDA/@@download/ENCFF002DDA.bed.gz	hg19			released	control low read depth, low read length, inconsistent platforms		insufficient read depth	
ENCFF002DCW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUB	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HMW, ENCFF001HNA	741203	ENCODE Consortium Analysis Working Group	616e2c2dddba644e8583216930f04db4		https://www.encodeproject.org/files/ENCFF002DCW/@@download/ENCFF002DCW.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth	extremely low read depth, missing control alignments
ENCFF830KSV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUB	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF155SMN, ENCFF242KOJ, ENCFF263ZIY	629516	ENCODE Processing Pipeline	e3851124fbda85eda9007e79e17f7d74		https://www.encodeproject.org/files/ENCFF830KSV/@@download/ENCFF830KSV.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth	extremely low read depth, missing control alignments
ENCFF002CKG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMZ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ELF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												454270	ENCODE Consortium Analysis Working Group	9a253e2d8586d1180b2c4629c75a7d23		https://www.encodeproject.org/files/ENCFF002CKG/@@download/ENCFF002CKG.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF747CHL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMZ	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ELF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF058SVD, ENCFF648CTU, ENCFF875YOA	363757	ENCODE Processing Pipeline	6cf30a6eafb808ec9250617a5b968d49		https://www.encodeproject.org/files/ENCFF747CHL/@@download/ENCFF747CHL.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF002CWF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		30.0 minute	MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE												680076	ENCODE Consortium Analysis Working Group	97fdb036134d390f6ab03921b34aaffe		https://www.encodeproject.org/files/ENCFF002CWF/@@download/ENCFF002CWF.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth	missing derived_from, biological replicates with identical biosample	control insufficient read depth	
ENCFF676YJE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		30.0 minute	MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF199SKV, ENCFF357NBU, ENCFF859MQB	636144	ENCODE Processing Pipeline	ffdaabb82feb7296592767b1c23b26fa		https://www.encodeproject.org/files/ENCFF676YJE/@@download/ENCFF676YJE.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth	biological replicates with identical biosample	control insufficient read depth	
ENCFF002CMJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SPI1-human	DNA		see document	see document		False	2011-07-18	ENCODE												551112	ENCODE Consortium Analysis Working Group	e5deb59ab10ad4f9cf73e327a1094fd3		https://www.encodeproject.org/files/ENCFF002CMJ/@@download/ENCFF002CMJ.bed.gz	hg19			released	low read length	biological replicates with identical biosample, missing derived_from		
ENCFF002DCG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRB	ChIP-seq	EFO:0005337	GM12864	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2, 3							ENCFF001HBJ, ENCFF001HBQ, ENCFF001HBS	953786	ENCODE Consortium Analysis Working Group	5540da952ea93db87192bf07e709c9bd		https://www.encodeproject.org/files/ENCFF002DCG/@@download/ENCFF002DCG.bed.gz	hg19			archived	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth	missing raw data in replicate	insufficient read depth	missing control alignments
ENCFF671RVI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRB	ChIP-seq	EFO:0005337	GM12864	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 3							ENCFF001TDO, ENCFF267DUF, ENCFF672SJH, ENCFF858HDY	739999	ENCODE Processing Pipeline	aaf3b50473d1552c9b4cf0b4678f1564		https://www.encodeproject.org/files/ENCFF671RVI/@@download/ENCFF671RVI.bed.gz	hg19			released	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth	missing raw data in replicate	insufficient read depth	missing control alignments
ENCFF622GQO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DKZ	ChIP-seq	EFO:0005345	GM13976	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF555GZI, ENCFF690YKI, ENCFF756RGK	519232	ENCODE Processing Pipeline	06def2b40abe0c2c60f7a804865ba3f7		https://www.encodeproject.org/files/ENCFF622GQO/@@download/ENCFF622GQO.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance	biological replicates with identical biosample	insufficient read depth	control extremely low read depth, missing control alignments
ENCFF002CPF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZG	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-10-29	ENCODE												152762	ENCODE Consortium Analysis Working Group	9cc0e437af92a42a1da3184eaddbcf0a		https://www.encodeproject.org/files/ENCFF002CPF/@@download/ENCFF002CPF.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth	biological replicates with identical biosample, missing derived_from	control insufficient read depth, insufficient replicate concordance	
ENCFF462GHD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZG	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF632WHJ, ENCFF832BPN, ENCFF981IPY	297848	ENCODE Processing Pipeline	d24dbbf4eb07c49cf63b19d7a03b606a		https://www.encodeproject.org/files/ENCFF462GHD/@@download/ENCFF462GHD.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth	biological replicates with identical biosample	control insufficient read depth, insufficient replicate concordance	
ENCFF002CTW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEE	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2011-10-29	ENCODE												1359017	ENCODE Consortium Analysis Working Group	92ef073fbaf203c55bf9a8420c1d47e8		https://www.encodeproject.org/files/ENCFF002CTW/@@download/ENCFF002CTW.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF319IEF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEE	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF359DUK, ENCFF578MYY, ENCFF684XQE	898132	ENCODE Processing Pipeline	27ed624082593d867ab0b13fc13c0765		https://www.encodeproject.org/files/ENCFF319IEF/@@download/ENCFF319IEF.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CUN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDV	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-10-29	ENCODE												175455	ENCODE Consortium Analysis Working Group	4dd80c054af7af291d3222c76720131e		https://www.encodeproject.org/files/ENCFF002CUN/@@download/ENCFF002CUN.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF259JWD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDV	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF119LSM, ENCFF416FNH, ENCFF508ZEB	160207	ENCODE Processing Pipeline	bb6fc9f0d80179bf7b4c03b16f98fb21		https://www.encodeproject.org/files/ENCFF259JWD/@@download/ENCFF259JWD.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CUD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EET	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens	forskolin and pyruvate		6.0 hour	HSF1-human	DNA		see document	see document		False	2011-10-29	ENCODE												33058	ENCODE Consortium Analysis Working Group	ac168e3835bf300e78e7f95c92016980		https://www.encodeproject.org/files/ENCFF002CUD/@@download/ENCFF002CUD.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CNU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQD	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	bisphenol A	100.0 nM	30.0 minute	ESR1-human	DNA		see document	see document		False	2012-02-29	ENCODE												106459	ENCODE Consortium Analysis Working Group	a86dcd18070158bf29fd91d8da95f8dc		https://www.encodeproject.org/files/ENCFF002CNU/@@download/ENCFF002CNU.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF475MKH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQD	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	bisphenol A	100.0 nM	30.0 minute	ESR1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF355REI, ENCFF467HMZ, ENCFF716CEW	78926	ENCODE Processing Pipeline	56c17819f25811479adb57587a078f5e		https://www.encodeproject.org/files/ENCFF475MKH/@@download/ENCFF475MKH.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF331WKY	bed narrowPeak	optimal idr thresholded peaks	ENCSR233FAG	ChIP-seq	EFO:0001184	HEK293T	cell line	Homo sapiens				PKNOX1-human	DNA					False	2016-11-17	ENCODE				1, 2							ENCFF001TDO, ENCFF025FXN, ENCFF667IBC, ENCFF914KNX	838373	ENCODE Processing Pipeline	d70bc76d79b6ddbf1d6f1726763db070		https://www.encodeproject.org/files/ENCFF331WKY/@@download/ENCFF331WKY.bed.gz	hg19			released				
ENCFF002COY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZI	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MXI1-human	DNA					False	2011-10-29	ENCODE												455182	ENCODE Consortium Analysis Working Group	95b92577da32551f9fd9cf9815f0c2db		https://www.encodeproject.org/files/ENCFF002COY/@@download/ENCFF002COY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, inconsistent target of control experiment	missing derived_from		
ENCFF079ZWK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZI	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MXI1-human	DNA					False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF603MKX, ENCFF711VHK, ENCFF776GTW	418493	ENCODE Processing Pipeline	6cacbee975f59501030c8b8587227808		https://www.encodeproject.org/files/ENCFF079ZWK/@@download/ENCFF079ZWK.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, inconsistent target of control experiment			
ENCFF002CHG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRN	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFIC-human	DNA		see document	see document		False	2012-02-29	ENCODE												608424	ENCODE Consortium Analysis Working Group	b8df4bad5bad9f8745dfe10c49735213		https://www.encodeproject.org/files/ENCFF002CHG/@@download/ENCFF002CHG.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF628QJU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRN	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFIC-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF019FNI, ENCFF729EFK, ENCFF806NEN	640810	ENCODE Processing Pipeline	dc9ce027a41e9f4547f9aa222c71c62c		https://www.encodeproject.org/files/ENCFF628QJU/@@download/ENCFF628QJU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	biological replicates with identical biosample		
ENCFF002DDD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUX	ChIP-seq	CL:0002557	fibroblast of pulmonary artery	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HQA, ENCFF001HQF	1280589	ENCODE Consortium Analysis Working Group	6eef776fc803129c517249a6d8cc4b18		https://www.encodeproject.org/files/ENCFF002DDD/@@download/ENCFF002DDD.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms			missing control alignments
ENCFF933VBD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUX	ChIP-seq	CL:0002557	fibroblast of pulmonary artery	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF470ARY, ENCFF541OOY, ENCFF610GLP	739247	ENCODE Processing Pipeline	a0ca7418cb4781ded156ca6489564a8e		https://www.encodeproject.org/files/ENCFF933VBD/@@download/ENCFF933VBD.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms			missing control alignments
ENCFF002CNA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJO	ChIP-seq	EFO:0002713	Panc1	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE												138538	ENCODE Consortium Analysis Working Group	9f4fb7fe59cb2f7d0c36b24f5131465d		https://www.encodeproject.org/files/ENCFF002CNA/@@download/ENCFF002CNA.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF809ECY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJO	ChIP-seq	EFO:0002713	Panc1	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF010OHK, ENCFF343XMY, ENCFF806MDV	130269	ENCODE Processing Pipeline	399777c2cb290a54d476ab74c5d32b5c		https://www.encodeproject.org/files/ENCFF809ECY/@@download/ENCFF809ECY.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CKM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMC	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				HDAC2-human	DNA		see document	see document		False	2011-07-18	ENCODE												448406	ENCODE Consortium Analysis Working Group	5ddcd742a555f8e2d7f1e61636550a9e		https://www.encodeproject.org/files/ENCFF002CKM/@@download/ENCFF002CKM.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF459DRJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMC	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				HDAC2-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF380BKK, ENCFF561VAE, ENCFF724UMT	459887	ENCODE Processing Pipeline	c7902bf5a399621d8bc456b6fcbdcae4		https://www.encodeproject.org/files/ENCFF459DRJ/@@download/ENCFF459DRJ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample		
ENCFF002CXV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				RFX5-human	DNA		see document	see document		False	2011-10-29	ENCODE												58297	ENCODE Consortium Analysis Working Group	84fc3a4909c0a97058659fbe659e0f55		https://www.encodeproject.org/files/ENCFF002CXV/@@download/ENCFF002CXV.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF716LRI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				RFX5-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF066GNV, ENCFF439SZI, ENCFF536YVV	52639	ENCODE Processing Pipeline	175fa8254c3ee7f766ed461e264093dd		https://www.encodeproject.org/files/ENCFF716LRI/@@download/ENCFF716LRI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DCH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRE	ChIP-seq	EFO:0005338	GM12865	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2, 3							ENCFF001HCD, ENCFF001HCE, ENCFF001HCL	921051	ENCODE Consortium Analysis Working Group	0c6742bbbd8830e32e485a7b43f857a5		https://www.encodeproject.org/files/ENCFF002DCH/@@download/ENCFF002DCH.bed.gz	hg19			archived	control low read depth, low read length, low read depth, inconsistent platforms	missing raw data in replicate	insufficient read depth	missing control alignments
ENCFF132AJR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRE	ChIP-seq	EFO:0005338	GM12865	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				2, 3							ENCFF001TDO, ENCFF109JHW, ENCFF583NIC, ENCFF867NAA	606092	ENCODE Processing Pipeline	c933cf05e523d56a4937c4b313fc01ea		https://www.encodeproject.org/files/ENCFF132AJR/@@download/ENCFF132AJR.bed.gz	hg19			released	control low read depth, low read length, low read depth, inconsistent platforms	missing raw data in replicate	insufficient read depth	missing control alignments
ENCFF210PLK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DKP	ChIP-seq	EFO:0005334	GM10248	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF049XKA, ENCFF251JON, ENCFF927PCL	563417	ENCODE Processing Pipeline	e0ba950f98c4bcacedd5503af90fa466		https://www.encodeproject.org/files/ENCFF210PLK/@@download/ENCFF210PLK.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth	control extremely low read depth, missing control alignments
ENCFF002CWP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GATA1-human	DNA		see document	see document		False	2011-10-29	ENCODE												80803	ENCODE Consortium Analysis Working Group	cd1050d97484e1762c9332c2fe2467ac		https://www.encodeproject.org/files/ENCFF002CWP/@@download/ENCFF002CWP.bed.gz	hg19			archived	borderline replicate concordance	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	extremely low read depth
ENCFF659WGE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GATA1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF281ONW, ENCFF830VFD, ENCFF942MUF	69686	ENCODE Processing Pipeline	1173386ed1cdefa8840fec380d4ffbde		https://www.encodeproject.org/files/ENCFF659WGE/@@download/ENCFF659WGE.bed.gz	hg19			released	borderline replicate concordance	biological replicates with identical biosample	insufficient read depth, insufficient read length	extremely low read depth
ENCFF002CSE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZD	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE												253559	ENCODE Consortium Analysis Working Group	cd0ff8cf66b0bac2ec9a653fc3344457		https://www.encodeproject.org/files/ENCFF002CSE/@@download/ENCFF002CSE.bed.gz	hg19			archived	control low read depth, borderline replicate concordance, inconsistent platforms	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	extremely low read depth
ENCFF688IPV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZD	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE												209732	ENCODE Processing Pipeline	d176f07488f92bc027468a9db6d5bd4d		https://www.encodeproject.org/files/ENCFF688IPV/@@download/ENCFF688IPV.bed.gz	hg19			archived	control low read depth, borderline replicate concordance, inconsistent platforms	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	extremely low read depth
ENCFF950LQM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZD	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF045UZK, ENCFF224GZD, ENCFF471HJA	209438	ENCODE Processing Pipeline	9c585bf7485ac45eac9214d50fa11e73		https://www.encodeproject.org/files/ENCFF950LQM/@@download/ENCFF950LQM.bed.gz	hg19			released	control low read depth, borderline replicate concordance, inconsistent platforms	biological replicates with identical biosample	insufficient read depth, insufficient read length	extremely low read depth
ENCFF002CFL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPT	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	ELF1-human	DNA		see document	see document		False	2012-02-29	ENCODE												213909	ENCODE Consortium Analysis Working Group	6a7358ad55f86356616458ebbb57edf0		https://www.encodeproject.org/files/ENCFF002CFL/@@download/ENCFF002CFL.bed.gz	hg19			archived	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF533NIV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPT	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	ELF1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF200DAE, ENCFF386WPS, ENCFF731JIX	201656	ENCODE Processing Pipeline	8235e20c036071844e126474e0b8d102		https://www.encodeproject.org/files/ENCFF533NIV/@@download/ENCFF533NIV.bed.gz	hg19			released	low read length	biological replicates with identical biosample		
ENCFF002CGW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRG	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				EGR1-human	DNA		see document	see document		False	2012-02-29	ENCODE												424286	ENCODE Consortium Analysis Working Group	8cf58cb06c7dc27907e9926a5f293f4b		https://www.encodeproject.org/files/ENCFF002CGW/@@download/ENCFF002CGW.bed.gz	hg19			archived	low read length, low read depth	missing derived_from		
ENCFF002CNT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNO	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	CTCF-human	DNA		see document	see document		False	2011-07-18	ENCODE												728239	ENCODE Consortium Analysis Working Group	b9dfea54d51b2cbafe754f0cff688fb3		https://www.encodeproject.org/files/ENCFF002CNT/@@download/ENCFF002CNT.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF903ZMF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNO	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	CTCF-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF885ILM, ENCFF976NKK, ENCFF986CUM	482518	ENCODE Processing Pipeline	765dd9a4fdebd8971d21488e7b273e3a		https://www.encodeproject.org/files/ENCFF903ZMF/@@download/ENCFF903ZMF.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF673PTK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EIB	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF398EYK, ENCFF413ZYK, ENCFF830ZWP	555908	ENCODE Processing Pipeline	152128b76890ff621885ed224a0216df		https://www.encodeproject.org/files/ENCFF673PTK/@@download/ENCFF673PTK.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CWL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-05-14	ENCODE												1125159	ENCODE Consortium Analysis Working Group	7c774d345a596a6b268fcab76040507a		https://www.encodeproject.org/files/ENCFF002CWL/@@download/ENCFF002CWL.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF738TKN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF264LXL, ENCFF545EHA, ENCFF595QHF	905102	ENCODE Processing Pipeline	8635b84f3c5785702257302d4b4b8f8a		https://www.encodeproject.org/files/ENCFF738TKN/@@download/ENCFF738TKN.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CUH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEB	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF000XTT, ENCFF000XTU	1495650	ENCODE Consortium Analysis Working Group	cd32b8a67b4dd94e08b140c8274ccf9f		https://www.encodeproject.org/files/ENCFF002CUH/@@download/ENCFF002CUH.bed.gz	hg19			archived	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF718CQQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEB	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF016LSH, ENCFF067XYR, ENCFF092FFG	1231199	ENCODE Processing Pipeline	c064056c9a2aee65e331abb72aa9a0e8		https://www.encodeproject.org/files/ENCFF718CQQ/@@download/ENCFF718CQQ.bed.gz	hg19			released	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF598VEK	bed narrowPeak	optimal idr thresholded peaks	ENCSR525YFS	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZBTB40-human	DNA					False	2016-08-01	ENCODE				1, 2							ENCFF001TDO, ENCFF246GJS, ENCFF741YYS, ENCFF829CKQ	120849	ENCODE Processing Pipeline	caa96ece080332e78a21cb467dfbe8d6		https://www.encodeproject.org/files/ENCFF598VEK/@@download/ENCFF598VEK.bed.gz	hg19			released	antibody characterized with exemption			
ENCFF002DCQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTF	ChIP-seq	CL:0002548	cardiac fibroblast	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1							ENCFF001HKB	807242	ENCODE Consortium Analysis Working Group	fde7e0859c20ba18cda848aa9ceffad1		https://www.encodeproject.org/files/ENCFF002DCQ/@@download/ENCFF002DCQ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms			
ENCFF002CYS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWN	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF263-human	DNA		see document	see document		False	2011-10-29	ENCODE												63718	ENCODE Consortium Analysis Working Group	78068fe6a83e3950baf4430d38749f04		https://www.encodeproject.org/files/ENCFF002CYS/@@download/ENCFF002CYS.bed.gz	hg19			archived		missing derived_from, biological replicates with identical biosample	insufficient read length	extremely low read depth
ENCFF891MVM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWN	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZNF263-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF051FKL, ENCFF100FXA, ENCFF537UES	67975	ENCODE Processing Pipeline	6f1947b757a7ffc01cf96e02420dce62		https://www.encodeproject.org/files/ENCFF891MVM/@@download/ENCFF891MVM.bed.gz	hg19			released		biological replicates with identical biosample	insufficient read length	extremely low read depth
ENCFF002CVD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVW	ChIP-seq	CL:0002618	endothelial cell of umbilical vein	primary cell	Homo sapiens				GATA2-human	DNA		see document	see document		False	2011-10-29	ENCODE												559821	ENCODE Consortium Analysis Working Group	45e0cb0ddada7adb182b762411f4c1c0		https://www.encodeproject.org/files/ENCFF002CVD/@@download/ENCFF002CVD.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, mixed read lengths	missing derived_from, biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF822SAU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVW	ChIP-seq	CL:0002618	endothelial cell of umbilical vein	primary cell	Homo sapiens				GATA2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF222CSK, ENCFF311XFB, ENCFF991EAY	506227	ENCODE Processing Pipeline	b147b14daf5660d3097f5ce840d9be19		https://www.encodeproject.org/files/ENCFF822SAU/@@download/ENCFF822SAU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, mixed read lengths	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CFM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPU	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	ETS1-human	DNA		see document	see document		False	2012-02-29	ENCODE												129154	ENCODE Consortium Analysis Working Group	f524690b4c0d59f8495f5b18cd0757dc		https://www.encodeproject.org/files/ENCFF002CFM/@@download/ENCFF002CFM.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth	missing derived_from, biological replicates with identical biosample		
ENCFF297HAT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPU	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	ETS1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF276JRH, ENCFF394JUH, ENCFF998WPB	180375	ENCODE Processing Pipeline	bf0caaa46405e97b31b7ab3ec0c68245		https://www.encodeproject.org/files/ENCFF297HAT/@@download/ENCFF297HAT.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth	biological replicates with identical biosample		
ENCFF002CRQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVD	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				ZNF263-human	DNA		see document	see document		False	2011-10-29	ENCODE												624271	ENCODE Consortium Analysis Working Group	d303f02a1d97ffeca6956990ab0c9ed0		https://www.encodeproject.org/files/ENCFF002CRQ/@@download/ENCFF002CRQ.bed.gz	hg19			released	low read length, low read depth, mixed read lengths	biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CXH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAF	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFE2-human	DNA		see document	see document		False	2011-10-29	ENCODE												53709	ENCODE Consortium Analysis Working Group	3fa5b2aaff7064f6bb43628c6a33c4a5		https://www.encodeproject.org/files/ENCFF002CXH/@@download/ENCFF002CXH.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF335GSE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AUE	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	100 nM	1 hour	CTCF-human	DNA		see document	see document		False	2012-08-06	ENCODE				1, 2							ENCFF001TDO, ENCFF014XSY, ENCFF142SVH, ENCFF781ICW	934065	ENCODE Processing Pipeline	1d3fadf80cf68565771e62c429c76195		https://www.encodeproject.org/files/ENCFF335GSE/@@download/ENCFF335GSE.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CHK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHJ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				PAX5-human	DNA		see document	see document		False	2011-07-18	ENCODE												383139	ENCODE Consortium Analysis Working Group	bc78187f95b7ecfb2d41029a2b41319d		https://www.encodeproject.org/files/ENCFF002CHK/@@download/ENCFF002CHK.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF199FYD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHJ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				PAX5-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF194IYQ, ENCFF735NFJ, ENCFF906INE	384049	ENCODE Processing Pipeline	07b55f11fdb125a63ab500f783d05d7b		https://www.encodeproject.org/files/ENCFF199FYD/@@download/ENCFF199FYD.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth	biological replicates with identical biosample	insufficient read depth	
ENCFF002CJH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJW	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				RXRA-human	DNA		see document	see document		False	2011-07-18	ENCODE												26542	ENCODE Consortium Analysis Working Group	156a09ea326e6d92c3b83927c6116c75		https://www.encodeproject.org/files/ENCFF002CJH/@@download/ENCFF002CJH.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF369JAI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJW	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				RXRA-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF673CDR, ENCFF701HCP, ENCFF914ZYY	35031	ENCODE Processing Pipeline	45eac8a6717368c2995378b49497d131		https://www.encodeproject.org/files/ENCFF369JAI/@@download/ENCFF369JAI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CVE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEZ	ChIP-seq	CL:0002618	endothelial cell of umbilical vein	primary cell	Homo sapiens				MAX-human	DNA		see document	see document		False	2011-10-29	ENCODE												202694	ENCODE Consortium Analysis Working Group	49d2220b47726f1448c459b0c7fdb9f0		https://www.encodeproject.org/files/ENCFF002CVE/@@download/ENCFF002CVE.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002DAX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DLS	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												754913	ENCODE Consortium Analysis Working Group	ecbae2a248b1e92b1f5eb99c8d762a63		https://www.encodeproject.org/files/ENCFF002DAX/@@download/ENCFF002DAX.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002COD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYI	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2012-05-14	ENCODE												852505	ENCODE Consortium Analysis Working Group	ebe8fa2c3ea787b5fd903756eff2a90f		https://www.encodeproject.org/files/ENCFF002COD/@@download/ENCFF002COD.bed.gz	hg19			archived	low read length, low read depth, inconsistent platforms, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF243NQJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYI	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF488XZE, ENCFF694VSV, ENCFF710XFQ	820421	ENCODE Processing Pipeline	eba9d012ffcc64edd76e443df53f3662		https://www.encodeproject.org/files/ENCFF243NQJ/@@download/ENCFF243NQJ.bed.gz	hg19			released	low read length, low read depth, inconsistent platforms, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CJR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRY	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				TEAD4-human	DNA		see document	see document		False	2012-09-10	ENCODE												409026	ENCODE Consortium Analysis Working Group	c852448911067252d6b3be1e7ea922d5		https://www.encodeproject.org/files/ENCFF002CJR/@@download/ENCFF002CJR.bed.gz	hg19			released	low read length, inconsistent platforms, mixed read lengths	biological replicates with identical biosample, missing derived_from		
ENCFF849EEH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHY	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				RFX5-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF668SRV, ENCFF695DKI, ENCFF860WKG	158174	ENCODE Processing Pipeline	37f5f64bc9fc3481a401537dd3e2b6f8		https://www.encodeproject.org/files/ENCFF849EEH/@@download/ENCFF849EEH.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CYM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NR2C2-human	DNA		see document	see document		False	2011-10-29	ENCODE												15862	ENCODE Consortium Analysis Working Group	60ccba98270606ef6d27ffb5aff33ce6		https://www.encodeproject.org/files/ENCFF002CYM/@@download/ENCFF002CYM.bed.gz	hg19			archived		biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	
ENCFF594LCH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NR2C2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF342EJU, ENCFF837CQV, ENCFF841ZNM	11703	ENCODE Processing Pipeline	b644a99d8801abfd2155e186effd31ba		https://www.encodeproject.org/files/ENCFF594LCH/@@download/ENCFF594LCH.bed.gz	hg19			released		biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF612TRG	bed narrowPeak	optimal idr thresholded peaks	ENCSR521IID	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				MAX-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF137BQM, ENCFF371DUN, ENCFF409TGM	593414	ENCODE Processing Pipeline	4f8617bfcdcb64e666fd3bea1450f25e		https://www.encodeproject.org/files/ENCFF612TRG/@@download/ENCFF612TRG.bed.gz	hg19			released	antibody characterized with exemption	biological replicates with identical biosample		
ENCFF002DCE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DQW	ChIP-seq	EFO:0002783	GM06990	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HAP, ENCFF001HAR	930755	ENCODE Consortium Analysis Working Group	60012a39f4d1835552dfba16dc8331a7		https://www.encodeproject.org/files/ENCFF002DCE/@@download/ENCFF002DCE.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms		insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF930QUM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DQW	ChIP-seq	EFO:0002783	GM06990	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF174YEU, ENCFF276JDQ, ENCFF830SNU	736511	ENCODE Processing Pipeline	bd61a515467d59a908d9e5668b3e868e		https://www.encodeproject.org/files/ENCFF930QUM/@@download/ENCFF930QUM.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms		insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF002CGB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQQ	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	TCF12-human	DNA		see document	see document		False	2012-02-29	ENCODE												458743	ENCODE Consortium Analysis Working Group	ac322aa7e90c92f92ae5c1fb1812dd23		https://www.encodeproject.org/files/ENCFF002CGB/@@download/ENCFF002CGB.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	missing derived_from, biological replicates with identical biosample		
ENCFF672FQU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQQ	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	TCF12-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF396UAX, ENCFF842BMF, ENCFF866QPM	537307	ENCODE Processing Pipeline	4efdaea798e890432a3edc08cd6cb780		https://www.encodeproject.org/files/ENCFF672FQU/@@download/ENCFF672FQU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample		
ENCFF002DAZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DLU	ChIP-seq	CL:0002618	endothelial cell of umbilical vein	primary cell	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-03-17	ENCODE												98320	ENCODE Consortium Analysis Working Group	ed57885cdc2e621df9fe2934c4f4bd93		https://www.encodeproject.org/files/ENCFF002DAZ/@@download/ENCFF002DAZ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking	missing derived_from	insufficient read depth	
ENCFF881EJW	bed narrowPeak	optimal idr thresholded peaks	ENCSR085IXF	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				SP1-human	DNA					False	2018-02-08	ENCODE				1, 2							ENCFF001TDO, ENCFF204PED, ENCFF502LWJ, ENCFF512BFW	1278434	ENCODE Processing Pipeline	9db9e2a5dead65918863cdd899a150cd		https://www.encodeproject.org/files/ENCFF881EJW/@@download/ENCFF881EJW.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample, experiment not submitted to GEO		
ENCFF002CXJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGQ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFYB-human	DNA		see document	see document		False	2011-10-29	ENCODE												207601	ENCODE Consortium Analysis Working Group	7ba84d9348d64c9aa4530e5b7b77c40e		https://www.encodeproject.org/files/ENCFF002CXJ/@@download/ENCFF002CXJ.bed.gz	hg19			archived	mild to moderate bottlenecking, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read length	extremely low read depth
ENCFF113PMT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGQ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFYB-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF180NNF, ENCFF193FRQ, ENCFF570JVX	159170	ENCODE Processing Pipeline	17bb2e1d538afdee207dfa2b58c5fa95		https://www.encodeproject.org/files/ENCFF113PMT/@@download/ENCFF113PMT.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	insufficient read length	extremely low read depth
ENCFF975PTM	bed narrowPeak	optimal idr thresholded peaks	ENCSR480LIS	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				ATF3-human	DNA					False	2016-03-31	ENCODE				1, 2							ENCFF001TDO, ENCFF189KUR, ENCFF770XDD, ENCFF788BDL	419388	ENCODE Processing Pipeline	a00b36b1c73079054c5df7c5d21b322e		https://www.encodeproject.org/files/ENCFF975PTM/@@download/ENCFF975PTM.bed.gz	hg19			released	low read depth, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF002CPD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZO	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NRF1-human	DNA		see document	see document		False	2011-10-29	ENCODE												141778	ENCODE Consortium Analysis Working Group	a1d333c58e9391193651f7f27ef10f3f		https://www.encodeproject.org/files/ENCFF002CPD/@@download/ENCFF002CPD.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF931XAL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZO	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NRF1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF502JYT, ENCFF562LQW, ENCFF789TQP	90284	ENCODE Processing Pipeline	49b2701b7ddb6de70c1f665a1d884702		https://www.encodeproject.org/files/ENCFF931XAL/@@download/ENCFF931XAL.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CSD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDG	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE												540407	ENCODE Consortium Analysis Working Group	48b2d8533a6c3c059d9939f1cc1964cc		https://www.encodeproject.org/files/ENCFF002CSD/@@download/ENCFF002CSD.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CTR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNT	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				ZZZ3-human	DNA		see document	see document		False	2011-10-29	ENCODE												7257	ENCODE Consortium Analysis Working Group	7695f41be364380f1e726d98727cc044		https://www.encodeproject.org/files/ENCFF002CTR/@@download/ENCFF002CTR.bed.gz	hg19			released	low read length, inconsistent platforms	biological replicates with identical biosample, missing derived_from		
ENCFF280GDT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BTK	ChIP-seq	EFO:0002793	HL-60	cell line	Homo sapiens				GABPA-human	DNA		see document	see document		False	2012-09-10	ENCODE				1, 2							ENCFF001TDO, ENCFF148CAJ, ENCFF647DHT, ENCFF847KJV	165440	ENCODE Processing Pipeline	703045c5651246291956c1efe81a8e2e		https://www.encodeproject.org/files/ENCFF280GDT/@@download/ENCFF280GDT.bed.gz	hg19			released	low read depth	biological replicates with identical biosample		
ENCFF739PUT	bed narrowPeak	optimal idr thresholded peaks	ENCSR016BMM	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				TAF1-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF225XDH, ENCFF407JBN, ENCFF903KIH	240640	ENCODE Processing Pipeline	0de78ae36c8572df537336ab5bdb9f6d		https://www.encodeproject.org/files/ENCFF739PUT/@@download/ENCFF739PUT.bed.gz	hg19			released	mild to moderate bottlenecking, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF002CQX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBP	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				GTF2F1-human	DNA		see document	see document		False	2012-05-14	ENCODE												94669	ENCODE Consortium Analysis Working Group	427a7b651ee385dd96cfceb8e2f7a08d		https://www.encodeproject.org/files/ENCFF002CQX/@@download/ENCFF002CQX.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF205YOD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBP	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				GTF2F1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF211BEL, ENCFF258FIQ, ENCFF449PNR	77008	ENCODE Processing Pipeline	c922c340580a815e7117f367dda72e7b		https://www.encodeproject.org/files/ENCFF205YOD/@@download/ENCFF205YOD.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CGR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHA	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BCL11A-human	DNA		see document	see document		False	2011-07-18	ENCODE												348483	ENCODE Consortium Analysis Working Group	52a244b336de35419f0cd40fab2edae1		https://www.encodeproject.org/files/ENCFF002CGR/@@download/ENCFF002CGR.bed.gz	hg19			archived	low read length, low read depth	missing derived_from, biological replicates with identical biosample		
ENCFF468MFY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHA	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BCL11A-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF046PLS, ENCFF080MVF, ENCFF289FQM	345367	ENCODE Processing Pipeline	7f180aca1612b6d01a7e549b1e685303		https://www.encodeproject.org/files/ENCFF468MFY/@@download/ENCFF468MFY.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF002CFH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQH	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	BCL3-human	DNA		see document	see document		False	2012-02-29	ENCODE												179680	ENCODE Consortium Analysis Working Group	438a33fdd8f029710327b3d6f6dbbce3		https://www.encodeproject.org/files/ENCFF002CFH/@@download/ENCFF002CFH.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF325WAV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQH	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	BCL3-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF395ZTW, ENCFF464UMR, ENCFF746BWA	232452	ENCODE Processing Pipeline	0842e3bc3cde1110bda1860a4a18a8fc		https://www.encodeproject.org/files/ENCFF325WAV/@@download/ENCFF325WAV.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002DCT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTO	ChIP-seq	EFO:0002824	HCT116	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HLO, ENCFF001HLP	1029268	ENCODE Consortium Analysis Working Group	ac9c4f461d11122b8f3cf90373558794		https://www.encodeproject.org/files/ENCFF002DCT/@@download/ENCFF002DCT.bed.gz	hg19			archived	control low read depth, low read length, low read depth			
ENCFF364QXM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTO	ChIP-seq	EFO:0002824	HCT116	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF498JUY, ENCFF655DUF, ENCFF988DJT	813755	ENCODE Processing Pipeline	28ab0b38761553ef323901ac055b31f4		https://www.encodeproject.org/files/ENCFF364QXM/@@download/ENCFF364QXM.bed.gz	hg19			released	control low read depth, low read length, low read depth			
ENCFF002CJX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHS	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				GABPA-human	DNA		see document	see document		False	2011-07-18	ENCODE												154682	ENCODE Consortium Analysis Working Group	9fdb5aba41ec5ae9b95ad2a0c5edd14a		https://www.encodeproject.org/files/ENCFF002CJX/@@download/ENCFF002CJX.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF793BVO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHS	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				GABPA-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF428HJN, ENCFF588CWW, ENCFF985GJY	134074	ENCODE Processing Pipeline	3b852f9fa019239b89ab2631c48a10a8		https://www.encodeproject.org/files/ENCFF793BVO/@@download/ENCFF793BVO.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF002CRV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNX	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				BDP1-human	DNA		see document	see document		False	2011-10-29	ENCODE												13232	ENCODE Consortium Analysis Working Group	fe274615f1addff9d92690272a00fbc4		https://www.encodeproject.org/files/ENCFF002CRV/@@download/ENCFF002CRV.bed.gz	hg19			released	inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CLH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGM	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												472354	ENCODE Consortium Analysis Working Group	4f5fc00411508310c161a6b2e77695e1		https://www.encodeproject.org/files/ENCFF002CLH/@@download/ENCFF002CLH.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample, missing derived_from		
ENCFF684BLN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGM	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF308DEQ, ENCFF316GUJ, ENCFF805TIZ	400681	ENCODE Processing Pipeline	3899b7d76e13cf4087901a7fac9fddb1		https://www.encodeproject.org/files/ENCFF684BLN/@@download/ENCFF684BLN.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample		
ENCFF002CWC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE												192247	ENCODE Consortium Analysis Working Group	abdba0bac5cb6444fefa32850edddc63		https://www.encodeproject.org/files/ENCFF002CWC/@@download/ENCFF002CWC.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF344EDE	bed narrowPeak	optimal idr thresholded peaks	ENCSR080XEY	ChIP-seq	UBERON:0002107	liver	tissue	Homo sapiens				FOXA2-human	DNA					False	2016-06-30	ENCODE				1, 2							ENCFF001TDO, ENCFF216JDJ, ENCFF539QIT, ENCFF555YAB	474546	ENCODE Processing Pipeline	d3e6b822f6c76b83e10faeeac4e38d0c		https://www.encodeproject.org/files/ENCFF344EDE/@@download/ENCFF344EDE.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity, antibody characterized with exemption	biological replicates with identical biosample		
ENCFF002CHZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TCF12-human	DNA		see document	see document		False	2011-07-18	ENCODE												395086	ENCODE Consortium Analysis Working Group	872fa752845c6d02b3cb1d6ca221bf1f		https://www.encodeproject.org/files/ENCFF002CHZ/@@download/ENCFF002CHZ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF160WLU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TCF12-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF571QYV, ENCFF734EMB, ENCFF814CGS	441776	ENCODE Processing Pipeline	1de50ea947fc32b20c14525ecf1087ac		https://www.encodeproject.org/files/ENCFF160WLU/@@download/ENCFF160WLU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002CNV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJS	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	genistein	100 nM	1 hour	ESR1-human	DNA		see document	see document		False	2011-07-18	ENCODE												272385	ENCODE Consortium Analysis Working Group	12dc7014881286d87e8c2f3746e29e6d		https://www.encodeproject.org/files/ENCFF002CNV/@@download/ENCFF002CNV.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF516GZM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJS	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	genistein	100 nM	1 hour	ESR1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF198ZBJ, ENCFF421BMH, ENCFF785UNT	208549	ENCODE Processing Pipeline	27aebe53e5af34c047820fe32f992ef1		https://www.encodeproject.org/files/ENCFF516GZM/@@download/ENCFF516GZM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DBY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPS	ChIP-seq	NTR:0000480	AG09319	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001GXP, ENCFF001GXR	987636	ENCODE Consortium Analysis Working Group	715ea220ec130c9be208be04461c66dc		https://www.encodeproject.org/files/ENCFF002DBY/@@download/ENCFF002DBY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	NTR biosample		
ENCFF245PXW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPS	ChIP-seq	NTR:0000480	AG09319	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF053EST, ENCFF528DMI, ENCFF949AFF	631971	ENCODE Processing Pipeline	962745b1d6d487ac2007f2d725ee8996		https://www.encodeproject.org/files/ENCFF245PXW/@@download/ENCFF245PXW.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	NTR biosample		
ENCFF002CSH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVL	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				E2F4-human	DNA		see document	see document		False	2011-10-29	ENCODE												72250	ENCODE Consortium Analysis Working Group	b0ee76b4bd597ffc28d3fbb455b4bca8		https://www.encodeproject.org/files/ENCFF002CSH/@@download/ENCFF002CSH.bed.gz	hg19			released	inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CFS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHG	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	5 nM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE												263337	ENCODE Consortium Analysis Working Group	219d9f444edeb30973949904d40d519e		https://www.encodeproject.org/files/ENCFF002CFS/@@download/ENCFF002CFS.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF913WFD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHG	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	5 nM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF012IVJ, ENCFF055UFA, ENCFF457IQL	226305	ENCODE Processing Pipeline	7c2d8a1c2786b19864e7a6e535d292ce		https://www.encodeproject.org/files/ENCFF913WFD/@@download/ENCFF913WFD.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CUY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVS	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				NR2C2-human	DNA		see document	see document		False	2011-10-29	ENCODE												68743	ENCODE Consortium Analysis Working Group	1341c254fe193f8e1b74e523a83b53fb		https://www.encodeproject.org/files/ENCFF002CUY/@@download/ENCFF002CUY.bed.gz	hg19			released	inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CXD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2012-05-14	ENCODE												633651	ENCODE Consortium Analysis Working Group	13a3c429f910b853f14a8fa2de029ec9		https://www.encodeproject.org/files/ENCFF002CXD/@@download/ENCFF002CXD.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF799HIG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF087MNA, ENCFF375JMY, ENCFF417GYT	624145	ENCODE Processing Pipeline	1b006f9e5ad27a54abb8329a52edd9d8		https://www.encodeproject.org/files/ENCFF799HIG/@@download/ENCFF799HIG.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample	insufficient read depth	
ENCFF002CWI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE												100566	ENCODE Consortium Analysis Working Group	dc7b2f11aa6ce545fdba1c08dc21c233		https://www.encodeproject.org/files/ENCFF002CWI/@@download/ENCFF002CWI.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CPL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZW	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RFX5-human	DNA		see document	see document		False	2011-10-29	ENCODE												115381	ENCODE Consortium Analysis Working Group	c30bfb05229daf605c7b5ef231d2f54c		https://www.encodeproject.org/files/ENCFF002CPL/@@download/ENCFF002CPL.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF402FYF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZW	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RFX5-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF381NIE, ENCFF628ZZL, ENCFF868UJU	110449	ENCODE Processing Pipeline	811017cf274710fe6aaf8c06d8649580		https://www.encodeproject.org/files/ENCFF402FYF/@@download/ENCFF402FYF.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CLI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNT	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE												380028	ENCODE Consortium Analysis Working Group	15a512ff508f74ddd63211bb308b1fe5		https://www.encodeproject.org/files/ENCFF002CLI/@@download/ENCFF002CLI.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient replicate concordance	
ENCFF420KEV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNT	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF224GWF, ENCFF387XCG, ENCFF725GND	399156	ENCODE Processing Pipeline	88ed7aa67f32ef173648f7033515b4f7		https://www.encodeproject.org/files/ENCFF420KEV/@@download/ENCFF420KEV.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth, insufficient replicate concordance	
ENCFF002CIY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNR	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				HDAC2-human	DNA		see document	see document		False	2011-07-18	ENCODE												108431	ENCODE Consortium Analysis Working Group	80752ae1c5310b02450b06c83f3df628		https://www.encodeproject.org/files/ENCFF002CIY/@@download/ENCFF002CIY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF902CVS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNR	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				HDAC2-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF159YRA, ENCFF273RCZ, ENCFF536YJT	183886	ENCODE Processing Pipeline	3f3592fa333e52b9cca1baa9811787c8		https://www.encodeproject.org/files/ENCFF902CVS/@@download/ENCFF902CVS.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample		
ENCFF002COZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZY	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFE2-human	DNA		see document	see document		False	2011-10-29	ENCODE												21770	ENCODE Consortium Analysis Working Group	ce7292661cd93ab37f47d9f30154a57f		https://www.encodeproject.org/files/ENCFF002COZ/@@download/ENCFF002COZ.bed.gz	hg19			archived	low read length, low read depth	biological replicates with identical biosample, missing derived_from	control insufficient read depth	
ENCFF766ERZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZY	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				NFE2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF126LPK, ENCFF168WPY, ENCFF955NAK	2372	ENCODE Processing Pipeline	95644ae74fe0934d417696338f134eae		https://www.encodeproject.org/files/ENCFF766ERZ/@@download/ENCFF766ERZ.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample	control insufficient read depth	
ENCFF002CRJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBW	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				ZNF143-human	DNA		see document	see document		False	2012-05-14	ENCODE												775636	ENCODE Consortium Analysis Working Group	75c727b2ab18086c2d82e11bf53d3266		https://www.encodeproject.org/files/ENCFF002CRJ/@@download/ENCFF002CRJ.bed.gz	hg19			archived	low read length, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF964BYN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBW	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				ZNF143-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF080SVL, ENCFF180SZJ, ENCFF902CAT	639247	ENCODE Processing Pipeline	cca4fd168c13d68f7e9751c2a7a43c7c		https://www.encodeproject.org/files/ENCFF964BYN/@@download/ENCFF964BYN.bed.gz	hg19			released	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CKZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHU	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RXRA-human	DNA		see document	see document		False	2011-07-18	ENCODE												378584	ENCODE Consortium Analysis Working Group	664cfd5f0deaa3414bb50c28fe2ec980		https://www.encodeproject.org/files/ENCFF002CKZ/@@download/ENCFF002CKZ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from	insufficient replicate concordance	missing control alignments
ENCFF964JXI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHU	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				RXRA-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF679VQP, ENCFF915JCV, ENCFF976ZDJ	425321	ENCODE Processing Pipeline	d540c903680e4b4ac7aea04e684324a5		https://www.encodeproject.org/files/ENCFF964JXI/@@download/ENCFF964JXI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient replicate concordance	missing control alignments
ENCFF002DDT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYB	ChIP-seq	EFO:0001260	WI38	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HYH, ENCFF001HYI	641662	ENCODE Consortium Analysis Working Group	290f42297b4c6b46ff5158f43a51da47		https://www.encodeproject.org/files/ENCFF002DDT/@@download/ENCFF002DDT.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking		insufficient read depth	
ENCFF016EUX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYB	ChIP-seq	EFO:0001260	WI38	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF200KQQ, ENCFF381HQF, ENCFF658PRB	489043	ENCODE Processing Pipeline	3b4175ee806d5059eb5007e4fa19891b		https://www.encodeproject.org/files/ENCFF016EUX/@@download/ENCFF016EUX.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking		insufficient read depth	
ENCFF002CYB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		30.0 minute	STAT1-human	DNA		see document	see document		False	2011-10-29	ENCODE												40339	ENCODE Consortium Analysis Working Group	1718fd972f2325347a55591909f5d6da		https://www.encodeproject.org/files/ENCFF002CYB/@@download/ENCFF002CYB.bed.gz	hg19			archived	control low read depth	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	
ENCFF290HTJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		30.0 minute	STAT1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF490WRP, ENCFF622FPS, ENCFF695SDJ	25619	ENCODE Processing Pipeline	a9aa20b61b6e61db5f4a49be039c6f10		https://www.encodeproject.org/files/ENCFF290HTJ/@@download/ENCFF290HTJ.bed.gz	hg19			released	control low read depth	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CSU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNS	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				NFYA-human	DNA		see document	see document		False	2011-10-29	ENCODE												145549	ENCODE Consortium Analysis Working Group	0648b23890a30a1df457a5ccd1b72a85		https://www.encodeproject.org/files/ENCFF002CSU/@@download/ENCFF002CSU.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CYI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TBL1XR1-human	DNA		see document	see document		False	2012-05-14	ENCODE												132380	ENCODE Consortium Analysis Working Group	7179d23bbb19655b2530129332aab3e8		https://www.encodeproject.org/files/ENCFF002CYI/@@download/ENCFF002CYI.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF048OBR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TBL1XR1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF029WBH, ENCFF148FBK, ENCFF570BGF	116170	ENCODE Processing Pipeline	af849a8e32cce9ef81c5076327bc52fa		https://www.encodeproject.org/files/ENCFF048OBR/@@download/ENCFF048OBR.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CNG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQN	ChIP-seq	EFO:0005234	PFSK-1	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2012-02-29	ENCODE												156824	ENCODE Consortium Analysis Working Group	66da916867df6e09215a4e5813b94fb9		https://www.encodeproject.org/files/ENCFF002CNG/@@download/ENCFF002CNG.bed.gz	hg19			archived	control low read depth, low read length, borderline replicate concordance	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF070SAY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQN	ChIP-seq	EFO:0005234	PFSK-1	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF499YNQ, ENCFF652LUF, ENCFF854IEG	277003	ENCODE Processing Pipeline	1a8073f1f951fdd5f174cb43a8608abf		https://www.encodeproject.org/files/ENCFF070SAY/@@download/ENCFF070SAY.bed.gz	hg19			released	control low read depth, low read length, borderline replicate concordance	biological replicates with identical biosample	insufficient read depth	
ENCFF002CEW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AOO	ChIP-seq	CL:0000127	astrocyte	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE												770760	ENCODE Consortium Analysis Working Group	434e33ec51c578c335d90954e33fb871		https://www.encodeproject.org/files/ENCFF002CEW/@@download/ENCFF002CEW.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity	missing derived_from, NTR biosample	insufficient read depth	
ENCFF415WKV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AOO	ChIP-seq	CL:0000127	astrocyte	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1, 2							ENCFF001TDO, ENCFF113DAW, ENCFF527FXX, ENCFF857XBX	576020	ENCODE Processing Pipeline	86f81256e7eb31e31845b1b9a9c45e35		https://www.encodeproject.org/files/ENCFF415WKV/@@download/ENCFF415WKV.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity	NTR biosample	insufficient read depth	
ENCFF002DCF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DQY	ChIP-seq	EFO:0005353	GM12801	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1							ENCFF001HBB	54731	ENCODE Consortium Analysis Working Group	596392705bd0e7954538494d7f40be01		https://www.encodeproject.org/files/ENCFF002DCF/@@download/ENCFF002DCF.bed.gz	hg19			released	control low read depth	inconsistent mapped reads lengths	insufficient read length	extremely low read depth
ENCFF002CPK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EAC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-10-29	ENCODE												757929	ENCODE Consortium Analysis Working Group	90be6eca516f3df86ba962066a7b0f55		https://www.encodeproject.org/files/ENCFF002CPK/@@download/ENCFF002CPK.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CRX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNW	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				BRF1-human	DNA		see document	see document		False	2011-10-29	ENCODE												5388	ENCODE Consortium Analysis Working Group	2281830d1b316504434057ff8956cf29		https://www.encodeproject.org/files/ENCFF002CRX/@@download/ENCFF002CRX.bed.gz	hg19			released	inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CVB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVU	ChIP-seq	CL:0002618	endothelial cell of umbilical vein	primary cell	Homo sapiens				FOS-human	DNA		see document	see document		False	2011-10-29	ENCODE												940722	ENCODE Consortium Analysis Working Group	5d2acf42ab0bb9a6d813b266c13b2c3a		https://www.encodeproject.org/files/ENCFF002CVB/@@download/ENCFF002CVB.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, duplicate lane review, missing derived_from	insufficient read depth	
ENCFF390MXI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVU	ChIP-seq	CL:0002618	endothelial cell of umbilical vein	primary cell	Homo sapiens				FOS-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF221BNG, ENCFF387HZM, ENCFF587UQZ	768034	ENCODE Processing Pipeline	c6480e664f94e84cc9968f1178d9c24b		https://www.encodeproject.org/files/ENCFF390MXI/@@download/ENCFF390MXI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, duplicate lane review	insufficient read depth	
ENCFF002CKJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLE	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOXA1-human	DNA		see document	see document		False	2011-07-18	ENCODE												1014435	ENCODE Consortium Analysis Working Group	615ea488dc54abb647c6e7d6aaa1a14d		https://www.encodeproject.org/files/ENCFF002CKJ/@@download/ENCFF002CKJ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF553PWA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLE	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				FOXA1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF157CCV, ENCFF169DCU, ENCFF245NLP	926013	ENCODE Processing Pipeline	3400c823c9ffb82c25a3addbaa5fa42a		https://www.encodeproject.org/files/ENCFF553PWA/@@download/ENCFF553PWA.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF276MQI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIZ	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	ESR1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF451WEI, ENCFF630EHJ, ENCFF775ACP	51885	ENCODE Processing Pipeline	300a8deab5912d00fca9e4eb3e75031a		https://www.encodeproject.org/files/ENCFF276MQI/@@download/ENCFF276MQI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth	missing control alignments
ENCFF002CJS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIU	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												507608	ENCODE Consortium Analysis Working Group	5ae1a553c320884a6b9f7f1447a88d93		https://www.encodeproject.org/files/ENCFF002CJS/@@download/ENCFF002CJS.bed.gz	hg19			archived	low read length, low read depth	missing derived_from, biological replicates with identical biosample		
ENCFF358BEF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIU	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF074EWX, ENCFF433NME, ENCFF868HHE	527733	ENCODE Processing Pipeline	3094c785a738fc27832b7fe913c3d950		https://www.encodeproject.org/files/ENCFF358BEF/@@download/ENCFF358BEF.bed.gz	hg19			released	low read length, low read depth	biological replicates with identical biosample		
ENCFF002CLK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZBTB7A-human	DNA		see document	see document		False	2012-02-29	ENCODE												178287	ENCODE Consortium Analysis Working Group	a00c93c5360f52a62646332b7f185658		https://www.encodeproject.org/files/ENCFF002CLK/@@download/ENCFF002CLK.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample		
ENCFF264LQE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQA	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				ZBTB7A-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF525ETQ, ENCFF598OWM, ENCFF973ZCY	225076	ENCODE Processing Pipeline	7ceb1eb4f2ead35aceb6dac50379a772		https://www.encodeproject.org/files/ENCFF264LQE/@@download/ENCFF264LQE.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF002CLP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BCLAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												87373	ENCODE Consortium Analysis Working Group	84b23b96b527536feaeb011ecb3ad402		https://www.encodeproject.org/files/ENCFF002CLP/@@download/ENCFF002CLP.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, mixed read lengths	biological replicates with identical biosample, missing derived_from	control insufficient read depth	
ENCFF203EDM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKH	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BCLAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF185HLZ, ENCFF650YKB, ENCFF674BPH	40925	ENCODE Processing Pipeline	3946dde3684d502243421593940f2481		https://www.encodeproject.org/files/ENCFF203EDM/@@download/ENCFF203EDM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, mixed read lengths	biological replicates with identical biosample	control insufficient read depth	
ENCFF002CRY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNV	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				BRF2-human	DNA		see document	see document		False	2011-10-29	ENCODE												8295	ENCODE Consortium Analysis Working Group	9398a1a6df6864705eb7fae3e09199ef		https://www.encodeproject.org/files/ENCFF002CRY/@@download/ENCFF002CRY.bed.gz	hg19			released	inconsistent platforms	biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CPQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TBL1XR1-human	DNA		see document	see document		False	2012-05-14	ENCODE												354983	ENCODE Consortium Analysis Working Group	f532c9aab1abb230ed38c56d14833c17		https://www.encodeproject.org/files/ENCFF002CPQ/@@download/ENCFF002CPQ.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF957YRU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TBL1XR1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF453YFD, ENCFF630PWI, ENCFF941AZB	297607	ENCODE Processing Pipeline	5e70a5136c41813c1a7f9b17b00685f4		https://www.encodeproject.org/files/ENCFF957YRU/@@download/ENCFF957YRU.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CYE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		6.0 hour	STAT1-human	DNA		see document	see document		False	2011-10-29	ENCODE												48537	ENCODE Consortium Analysis Working Group	199b233a57914bd4ff8cd80e03ae96bc		https://www.encodeproject.org/files/ENCFF002CYE/@@download/ENCFF002CYE.bed.gz	hg19			archived	control low read depth, mixed read lengths	missing derived_from, biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF648NYF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHJ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		6.0 hour	STAT1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF473ULH, ENCFF797EKN, ENCFF947WYS	49746	ENCODE Processing Pipeline	2a8c734f74b99e36c8be46d2216ac62e		https://www.encodeproject.org/files/ENCFF648NYF/@@download/ENCFF648NYF.bed.gz	hg19			released	control low read depth, mixed read lengths	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CRC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECC	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				NRF1-human	DNA		see document	see document		False	2011-10-29	ENCODE												113020	ENCODE Consortium Analysis Working Group	ac25b5be53b26c71dbb7393b82bc891f		https://www.encodeproject.org/files/ENCFF002CRC/@@download/ENCFF002CRC.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF508IBP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECC	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				NRF1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF392HAM, ENCFF547PLM, ENCFF987TTM	87681	ENCODE Processing Pipeline	665542539f7b759c7b820632d8d8d8c3		https://www.encodeproject.org/files/ENCFF508IBP/@@download/ENCFF508IBP.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CFE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARO	ChIP-seq	CL:0002553	fibroblast of lung	primary cell	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE												171761	ENCODE Consortium Analysis Working Group	c280543eeeb49fdd89d338ca4605ba20		https://www.encodeproject.org/files/ENCFF002CFE/@@download/ENCFF002CFE.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking	missing derived_from		missing control alignments
ENCFF772XQF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARO	ChIP-seq	CL:0002553	fibroblast of lung	primary cell	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE				1, 2							ENCFF001TDO, ENCFF013CEU, ENCFF306KIF, ENCFF379HMO	243525	ENCODE Processing Pipeline	e318abb26c13b0c4841f1a0da0747386		https://www.encodeproject.org/files/ENCFF772XQF/@@download/ENCFF772XQF.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking			missing control alignments
ENCFF689AXJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYV	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF122PLB, ENCFF156VOX, ENCFF226PAC	121444	ENCODE Processing Pipeline	b61b43061a198f6f74206eee7d7b8e4a		https://www.encodeproject.org/files/ENCFF689AXJ/@@download/ENCFF689AXJ.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, inconsistent mapped reads lengths		
ENCFF134XDY	bed narrowPeak	optimal idr thresholded peaks	ENCSR251OVJ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SMAD5-human	DNA					False	2016-02-02	ENCODE				1, 2							ENCFF001TDO, ENCFF045XQS, ENCFF502RRE, ENCFF895ECZ	206496	ENCODE Processing Pipeline	d8344e811dbec6f17020acdb4a272fc5		https://www.encodeproject.org/files/ENCFF134XDY/@@download/ENCFF134XDY.bed.gz	hg19			released	low read depth, antibody characterized with exemption			
ENCFF711TMS	bed narrowPeak	optimal idr thresholded peaks	ENCSR251OVJ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SMAD5-human	DNA					False	2016-02-02	ENCODE				1, 2							ENCFF001TDO, ENCFF413GIF, ENCFF553HHF, ENCFF794YQY	173931	ENCODE Processing Pipeline	ab21595564b935d834567abac5d3a9c9		https://www.encodeproject.org/files/ENCFF711TMS/@@download/ENCFF711TMS.bed.gz	hg19			archived	low read depth, antibody characterized with exemption			
ENCFF677OWM	bed narrowPeak	optimal idr thresholded peaks	ENCSR996ESX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NFRKB-human	DNA					False	2018-01-26	ENCODE				1, 2							ENCFF001TDO, ENCFF139EAR, ENCFF630SOG, ENCFF648NVD	149805	ENCODE Processing Pipeline	a3af5e542702471717992287eaae5b71		https://www.encodeproject.org/files/ENCFF677OWM/@@download/ENCFF677OWM.bed.gz	hg19			released	mild to moderate bottlenecking, low read depth	experiment not submitted to GEO	partially characterized antibody	
ENCFF002CLY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				FOSL1-human	DNA		see document	see document		False	2011-07-18	ENCODE												224220	ENCODE Consortium Analysis Working Group	542fee5cc2b0c4d57b8021a3254e21f6		https://www.encodeproject.org/files/ENCFF002CLY/@@download/ENCFF002CLY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	control insufficient read depth	
ENCFF473GCH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				FOSL1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF400JWL, ENCFF753OLX, ENCFF818IMH	133495	ENCODE Processing Pipeline	86ddcb80bb8c5f873e909777fd5562ce		https://www.encodeproject.org/files/ENCFF473GCH/@@download/ENCFF473GCH.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	control insufficient read depth	
ENCFF002CUC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEU	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens	forskolin and pyruvate		6.0 hour	HNF4A-human	DNA		see document	see document		False	2011-10-29	ENCODE												213158	ENCODE Consortium Analysis Working Group	006988cb6eb478daf34722128c086ab7		https://www.encodeproject.org/files/ENCFF002CUC/@@download/ENCFF002CUC.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002COL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZS	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BRCA1-human	DNA		see document	see document		False	2011-10-29	ENCODE												14118	ENCODE Consortium Analysis Working Group	9244c35a76113602e7ca61ee915f9e18		https://www.encodeproject.org/files/ENCFF002COL/@@download/ENCFF002COL.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample	insufficient replicate concordance	
ENCFF082JDH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZS	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				BRCA1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF093WNM, ENCFF106CWI, ENCFF443VLF	31791	ENCODE Processing Pipeline	10299328af6a1ef178cd4a17a91c4c3e		https://www.encodeproject.org/files/ENCFF082JDH/@@download/ENCFF082JDH.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample	insufficient replicate concordance	
ENCFF002CWG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		6.0 hour	MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE												401062	ENCODE Consortium Analysis Working Group	d5ec7ee4fc4ed19db3b6d72ce1341cdd		https://www.encodeproject.org/files/ENCFF002CWG/@@download/ENCFF002CWG.bed.gz	hg19			archived	control low read depth, borderline replicate concordance, mixed read lengths	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	
ENCFF099SDW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		6.0 hour	MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF162CMX, ENCFF934ENB, ENCFF987HSI	365512	ENCODE Processing Pipeline	a5ea998d3571ba34457f33fe6da76db2		https://www.encodeproject.org/files/ENCFF099SDW/@@download/ENCFF099SDW.bed.gz	hg19			released	control low read depth, borderline replicate concordance, mixed read lengths	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002DCN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DSZ	ChIP-seq	CL:0002603	astrocyte of the cerebellum	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HIL, ENCFF001HIM	1041973	ENCODE Consortium Analysis Working Group	6f6e5bd28de13ea3f263d372708f7a6d		https://www.encodeproject.org/files/ENCFF002DCN/@@download/ENCFF002DCN.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity		insufficient read depth	missing control alignments
ENCFF660HHS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DSZ	ChIP-seq	CL:0002603	astrocyte of the cerebellum	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF542XFE, ENCFF724RQI, ENCFF897VMF	765621	ENCODE Processing Pipeline	4c00b542348b145ccdfb55fee6c12ab9		https://www.encodeproject.org/files/ENCFF660HHS/@@download/ENCFF660HHS.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity		insufficient read depth	missing control alignments
ENCFF002CVH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFI	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-05-14	ENCODE												1000229	ENCODE Consortium Analysis Working Group	2ef1d56d5777c1eec6dc2433a3cfb1ba		https://www.encodeproject.org/files/ENCFF002CVH/@@download/ENCFF002CVH.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		missing control alignments
ENCFF453XKM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFI	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF070OIO, ENCFF598QPN, ENCFF719YRP	749002	ENCODE Processing Pipeline	7012df7b06605f9a5fb69695e1a4178e		https://www.encodeproject.org/files/ENCFF453XKM/@@download/ENCFF453XKM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		missing control alignments
ENCFF336HCY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ATS	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				SUZ12-human	DNA		see document	see document		False	2012-08-06	ENCODE				1, 3							ENCFF001TDO, ENCFF371ZTN, ENCFF588OJE, ENCFF907MBG	339267	ENCODE Processing Pipeline	8fce81d8aa02bb6084375e79f029bba9		https://www.encodeproject.org/files/ENCFF336HCY/@@download/ENCFF336HCY.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, inconsistent platforms, mixed read lengths, moderate library complexity	inconsistent mapped reads lengths		
ENCFF002DDM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DWQ	ChIP-seq	CL:1001608	foreskin fibroblast	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HUP, ENCFF001HUQ	955296	ENCODE Consortium Analysis Working Group	bf6c3602c84abce53f0b5d69f870ce34		https://www.encodeproject.org/files/ENCFF002DDM/@@download/ENCFF002DDM.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth			missing control alignments
ENCFF337WIE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DWQ	ChIP-seq	CL:1001608	foreskin fibroblast	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF290QTC, ENCFF683BND, ENCFF947TJH	782984	ENCODE Processing Pipeline	b3d90d4e894ae83cd81c99c55fc84db1		https://www.encodeproject.org/files/ENCFF337WIE/@@download/ENCFF337WIE.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth			missing control alignments
ENCFF002DDI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DVQ	ChIP-seq	CL:0002558	fibroblast of villous mesenchyme	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HSM, ENCFF001HSO	911539	ENCODE Consortium Analysis Working Group	d5a6de4ca1948023ffb73da452400ed2		https://www.encodeproject.org/files/ENCFF002DDI/@@download/ENCFF002DDI.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth		insufficient read depth	
ENCFF738CXX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DVQ	ChIP-seq	CL:0002558	fibroblast of villous mesenchyme	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF232MQQ, ENCFF569PZS, ENCFF883QKB	768494	ENCODE Processing Pipeline	5a3c9d8e93fc9918892fa2f3ecf1426a		https://www.encodeproject.org/files/ENCFF738CXX/@@download/ENCFF738CXX.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth		insufficient read depth	
ENCFF002CMC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2011-07-18	ENCODE												1187908	ENCODE Consortium Analysis Working Group	ad3cebc9cc63d00128334a3f1539e7af		https://www.encodeproject.org/files/ENCFF002CMC/@@download/ENCFF002CMC.bed.gz	hg19			archived	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF422NGZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLP	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF280XEL, ENCFF609KEQ, ENCFF922CBN	1024235	ENCODE Processing Pipeline	747de7bd157b52cb8b23dbf18917e54a		https://www.encodeproject.org/files/ENCFF422NGZ/@@download/ENCFF422NGZ.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth	biological replicates with identical biosample		
ENCFF002CSA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDA	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				CEBPB-human	DNA		see document	see document		False	2011-10-29	ENCODE												1284848	ENCODE Consortium Analysis Working Group	f85716cb7fe3fda2d73d895e930e47c2		https://www.encodeproject.org/files/ENCFF002CSA/@@download/ENCFF002CSA.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CKN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLF	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				HNF4A-human	DNA		see document	see document		False	2011-07-18	ENCODE												407127	ENCODE Consortium Analysis Working Group	a3fd51799799bc21f0c372816af6bda5		https://www.encodeproject.org/files/ENCFF002CKN/@@download/ENCFF002CKN.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample, missing derived_from	insufficient read depth	
ENCFF884JKW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLF	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				HNF4A-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF167THE, ENCFF176XYE, ENCFF277KXQ	382258	ENCODE Processing Pipeline	b34f82ba92cb34b320e67f0328816c72		https://www.encodeproject.org/files/ENCFF884JKW/@@download/ENCFF884JKW.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CTB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDE	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-10-29	ENCODE												946544	ENCODE Consortium Analysis Working Group	11cdf5ce154b89532bb688f47985f9e2		https://www.encodeproject.org/files/ENCFF002CTB/@@download/ENCFF002CTB.bed.gz	hg19			released	low read length	biological replicates with identical biosample, missing derived_from		
ENCFF002CWD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		30.0 minute	MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE												174210	ENCODE Consortium Analysis Working Group	f2e6a896ed9f1597694b779de3fa7a23		https://www.encodeproject.org/files/ENCFF002CWD/@@download/ENCFF002CWD.bed.gz	hg19			archived	control low read depth, borderline replicate concordance	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	
ENCFF634AYU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon alpha		30.0 minute	MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF517GFP, ENCFF726YHM, ENCFF761YWV	156795	ENCODE Processing Pipeline	730d1f4239612dda93845a2c03f5db0d		https://www.encodeproject.org/files/ENCFF634AYU/@@download/ENCFF634AYU.bed.gz	hg19			released	control low read depth, borderline replicate concordance	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CWB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		6.0 hour	JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE												159843	ENCODE Consortium Analysis Working Group	434c22a477db41bc83f31dc6197c638d		https://www.encodeproject.org/files/ENCFF002CWB/@@download/ENCFF002CWB.bed.gz	hg19			archived	control low read depth, borderline replicate concordance, mixed read lengths	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	
ENCFF192BTP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		6.0 hour	JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF052OWI, ENCFF394RSM, ENCFF436KCV	111175	ENCODE Processing Pipeline	f6d9722fc246ece97dc02a364d78a156		https://www.encodeproject.org/files/ENCFF192BTP/@@download/ENCFF192BTP.bed.gz	hg19			released	control low read depth, borderline replicate concordance, mixed read lengths	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CND	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGA	ChIP-seq	EFO:0005234	PFSK-1	cell line	Homo sapiens				FOXP2-human	DNA		see document	see document		False	2011-07-18	ENCODE												378426	ENCODE Consortium Analysis Working Group	c51728b87f0d1f605b9000138b0da558		https://www.encodeproject.org/files/ENCFF002CND/@@download/ENCFF002CND.bed.gz	hg19			archived	control low read depth, borderline replicate concordance, inconsistent platforms	biological replicates with identical biosample, missing derived_from	insufficient read depth	extremely low read depth, extremely low read length
ENCFF395BZZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGA	ChIP-seq	EFO:0005234	PFSK-1	cell line	Homo sapiens				FOXP2-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF229DJA, ENCFF882KTD, ENCFF943NWC	302567	ENCODE Processing Pipeline	4e19b95df0695a93ba3dc403d0d64995		https://www.encodeproject.org/files/ENCFF395BZZ/@@download/ENCFF395BZZ.bed.gz	hg19			released	control low read depth, borderline replicate concordance, inconsistent platforms	biological replicates with identical biosample	insufficient read depth	extremely low read depth, extremely low read length
ENCFF002CFZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRL	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	SIX5-human	DNA		see document	see document		False	2012-02-29	ENCODE												122023	ENCODE Consortium Analysis Working Group	b22ea9d58598b742790c5b6682dda181		https://www.encodeproject.org/files/ENCFF002CFZ/@@download/ENCFF002CFZ.bed.gz	hg19			archived	low read length	biological replicates with identical biosample, missing derived_from		
ENCFF165AUR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRL	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	SIX5-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF026LZC, ENCFF838ZHL, ENCFF974EOM	148829	ENCODE Processing Pipeline	dcc0af113feb3c7e0cd87e3e67db6c1c		https://www.encodeproject.org/files/ENCFF165AUR/@@download/ENCFF165AUR.bed.gz	hg19			released	low read length	biological replicates with identical biosample		
ENCFF002CIF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJH	ChIP-seq	EFO:0002785	GM12891	cell line	Homo sapiens				PAX5-human	DNA		see document	see document		False	2011-07-18	ENCODE												63039	ENCODE Consortium Analysis Working Group	81219a9230097e295755a9b648cb2a5e		https://www.encodeproject.org/files/ENCFF002CIF/@@download/ENCFF002CIF.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read depth, severe bottlenecking	
ENCFF067QUU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJH	ChIP-seq	EFO:0002785	GM12891	cell line	Homo sapiens				PAX5-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF385UJM, ENCFF493TPH, ENCFF801IRZ	113118	ENCODE Processing Pipeline	5dad41b367e9fb1f040fcd4a384e1dd0		https://www.encodeproject.org/files/ENCFF067QUU/@@download/ENCFF067QUU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	insufficient read depth, severe bottlenecking	
ENCFF002DDK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DWH	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HTS, ENCFF001HTX	1232023	ENCODE Consortium Analysis Working Group	8a958f1902ed72574b7f49af0d9af347		https://www.encodeproject.org/files/ENCFF002DDK/@@download/ENCFF002DDK.bed.gz	hg19			archived	low read length, low read depth			
ENCFF414FWV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DWH	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF051RIN, ENCFF095BZW, ENCFF645FWE	998849	ENCODE Processing Pipeline	d10b4180a11b1153c93ac953d9ea5b6e		https://www.encodeproject.org/files/ENCFF414FWV/@@download/ENCFF414FWV.bed.gz	hg19			released	low read length, low read depth			
ENCFF002CGH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQE	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	CTCF-human	DNA		see document	see document		False	2012-02-29	ENCODE												503330	ENCODE Consortium Analysis Working Group	dada712ff792fceffd9d90d3fe249d2d		https://www.encodeproject.org/files/ENCFF002CGH/@@download/ENCFF002CGH.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF296XCF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQE	ChIP-seq	EFO:0005718	Ishikawa	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	CTCF-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF305MUT, ENCFF542MFI, ENCFF598COF	383004	ENCODE Processing Pipeline	c426eb3fba59c258c551f1b9197e8079		https://www.encodeproject.org/files/ENCFF296XCF/@@download/ENCFF296XCF.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002CYD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		30.0 minute	STAT1-human	DNA		see document	see document		False	2011-10-29	ENCODE												54441	ENCODE Consortium Analysis Working Group	e8bdf374770a425d884ec74e902338b6		https://www.encodeproject.org/files/ENCFF002CYD/@@download/ENCFF002CYD.bed.gz	hg19			archived	mixed read lengths	missing derived_from, biological replicates with identical biosample	control insufficient read depth, insufficient read depth, insufficient replicate concordance, insufficient read length	
ENCFF498DOQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		30.0 minute	STAT1-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF585NXD, ENCFF763YXP, ENCFF956SIV	18040	ENCODE Processing Pipeline	cabac0bdd4bc42dfea03b1f763d569c8		https://www.encodeproject.org/files/ENCFF498DOQ/@@download/ENCFF498DOQ.bed.gz	hg19			released	mixed read lengths	biological replicates with identical biosample	control insufficient read depth, insufficient read depth, insufficient replicate concordance, insufficient read length	
ENCFF654YPN	bed narrowPeak	optimal idr thresholded peaks	ENCSR584GHV	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				NFE2L2-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF314DTI, ENCFF332PXJ, ENCFF767PWR	137730	ENCODE Processing Pipeline	a6c4c723a4a6672ad59f6ac26c2b0c25		https://www.encodeproject.org/files/ENCFF654YPN/@@download/ENCFF654YPN.bed.gz	hg19			released	low read length, borderline replicate concordance			
ENCFF002CQY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBZ	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-10-29	ENCODE												244022	ENCODE Consortium Analysis Working Group	525cce1f671f1810aa1c48d2f85a2d6a		https://www.encodeproject.org/files/ENCFF002CQY/@@download/ENCFF002CQY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF760AQQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBZ	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF065SXF, ENCFF162PXN, ENCFF338SNH	233544	ENCODE Processing Pipeline	66b5655b705d61f43eef9a3327e5df2b		https://www.encodeproject.org/files/ENCFF760AQQ/@@download/ENCFF760AQQ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CWA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZT	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		30.0 minute	JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE												183099	ENCODE Consortium Analysis Working Group	51f6da08d5b1a787ae904ac0bc01e2bc		https://www.encodeproject.org/files/ENCFF002CWA/@@download/ENCFF002CWA.bed.gz	hg19			archived	mild to moderate bottlenecking, mixed read lengths	missing derived_from, biological replicates with identical biosample	control insufficient read depth, insufficient read depth, insufficient read length	
ENCFF417QAJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EZT	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens	interferon gamma		30.0 minute	JUN-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF076VIZ, ENCFF646NDI, ENCFF711IWR	149199	ENCODE Processing Pipeline	238b9e00469f275659c398777dc0f553		https://www.encodeproject.org/files/ENCFF417QAJ/@@download/ENCFF417QAJ.bed.gz	hg19			released	mild to moderate bottlenecking, mixed read lengths	biological replicates with identical biosample	control insufficient read depth, insufficient read depth, insufficient read length	
ENCFF002CJB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHM	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE												272383	ENCODE Consortium Analysis Working Group	fd8f0f6b21e19fa1c186d9de059c1d27		https://www.encodeproject.org/files/ENCFF002CJB/@@download/ENCFF002CJB.bed.gz	hg19			archived	low read length, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF453HPD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHM	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF116MTZ, ENCFF719OMW, ENCFF935KIG	278409	ENCODE Processing Pipeline	07f8d6d12ffe4b5d81a0bfda84ea298d		https://www.encodeproject.org/files/ENCFF453HPD/@@download/ENCFF453HPD.bed.gz	hg19			released	low read length, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CKP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGK	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-07-18	ENCODE												417508	ENCODE Consortium Analysis Working Group	3f5847a857c4581b0a6eee63d611118d		https://www.encodeproject.org/files/ENCFF002CKP/@@download/ENCFF002CKP.bed.gz	hg19			archived	control low read depth, low read length, low read depth, borderline replicate concordance	biological replicates with identical biosample, missing derived_from		missing control alignments
ENCFF721HUX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGK	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF265CMT, ENCFF323HOG, ENCFF953YCY	480792	ENCODE Processing Pipeline	52a019c14919da9374985ab812f42e9d		https://www.encodeproject.org/files/ENCFF721HUX/@@download/ENCFF721HUX.bed.gz	hg19			released	control low read depth, low read length, low read depth, borderline replicate concordance	biological replicates with identical biosample		missing control alignments
ENCFF543VGD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYD	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF144GCK, ENCFF320LNM, ENCFF377UTP	783720	ENCODE Processing Pipeline	5ec46ebb8b1b8b0b3efca5ee107976ef		https://www.encodeproject.org/files/ENCFF543VGD/@@download/ENCFF543VGD.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, inconsistent platforms, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CMT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TEAD4-human	DNA		see document	see document		False	2012-02-29	ENCODE												623516	ENCODE Consortium Analysis Working Group	90e37355f317426523602e11b566c865		https://www.encodeproject.org/files/ENCFF002CMT/@@download/ENCFF002CMT.bed.gz	hg19			archived	low read length, inconsistent platforms	biological replicates with identical biosample, missing derived_from		
ENCFF209MQX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRK	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TEAD4-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF318EUW, ENCFF740XZM, ENCFF835OES	592931	ENCODE Processing Pipeline	445f3e8cab3b8f9e3271a2b0583cf90c		https://www.encodeproject.org/files/ENCFF209MQX/@@download/ENCFF209MQX.bed.gz	hg19			released	low read length, inconsistent platforms	biological replicates with identical biosample		
ENCFF002CDQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE												67149	ENCODE Consortium Analysis Working Group	a83818c95d19d511da850dc44deb4452		https://www.encodeproject.org/files/ENCFF002CDQ/@@download/ENCFF002CDQ.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms	missing derived_from	control insufficient read depth, insufficient read depth	
ENCFF678JII	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARD	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE				1, 2							ENCFF001TDO, ENCFF178CPV, ENCFF411KUR, ENCFF859FLD	37189	ENCODE Processing Pipeline	e89a61b52a33a3db505994d17393df9a		https://www.encodeproject.org/files/ENCFF678JII/@@download/ENCFF678JII.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, borderline replicate concordance, inconsistent platforms		control insufficient read depth, insufficient read depth	
ENCFF002CIB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGI	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												213517	ENCODE Consortium Analysis Working Group	1bf2991d99a656a47e86871db2d854ab		https://www.encodeproject.org/files/ENCFF002CIB/@@download/ENCFF002CIB.bed.gz	hg19			archived	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, low read depth, mixed read lengths	missing derived_from, biological replicates with identical biosample	insufficient read depth	extremely low read length
ENCFF805GKD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGI	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF083HDR, ENCFF238JYT, ENCFF518BAN	139678	ENCODE Processing Pipeline	f645df6ebe696a996c18451fce189d75		https://www.encodeproject.org/files/ENCFF805GKD/@@download/ENCFF805GKD.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, low read depth, mixed read lengths	biological replicates with identical biosample	insufficient read depth	extremely low read length
ENCFF629BFI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				JUN-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF182AWR, ENCFF422SBX, ENCFF596KVH	388538	ENCODE Processing Pipeline	5ebab0cfbc3b0ee3b78931c4d1edd480		https://www.encodeproject.org/files/ENCFF629BFI/@@download/ENCFF629BFI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample	insufficient read depth	
ENCFF002CVK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFJ	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2012-05-14	ENCODE												832534	ENCODE Consortium Analysis Working Group	575dc86072845c353a9146d296e3812f		https://www.encodeproject.org/files/ENCFF002CVK/@@download/ENCFF002CVK.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF195CYT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFJ	ChIP-seq	EFO:0001196	IMR-90	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF058CVP, ENCFF263ADC, ENCFF731ASC	701358	ENCODE Processing Pipeline	4d3907a2d16dc9294acca25831c73b27		https://www.encodeproject.org/files/ENCFF195CYT/@@download/ENCFF195CYT.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CSL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECZ	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				GTF2F1-human	DNA		see document	see document		False	2011-10-29	ENCODE												302946	ENCODE Consortium Analysis Working Group	6bb4c8493a3be44ede2ce45814c7c621		https://www.encodeproject.org/files/ENCFF002CSL/@@download/ENCFF002CSL.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF002CHQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGQ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SPI1-human	DNA		see document	see document		False	2011-07-18	ENCODE												898654	ENCODE Consortium Analysis Working Group	7bfcaceb2634fd60e68d9c6730a55f7b		https://www.encodeproject.org/files/ENCFF002CHQ/@@download/ENCFF002CHQ.bed.gz	hg19			released	low read length	biological replicates with identical biosample, missing derived_from, missing raw data in replicate		
ENCFF002DCV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTW	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HMJ, ENCFF001HMN	1062592	ENCODE Consortium Analysis Working Group	7a84af76cdca6859dbcbdea72982e5a2		https://www.encodeproject.org/files/ENCFF002DCV/@@download/ENCFF002DCV.bed.gz	hg19			archived	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth			extremely low read depth
ENCFF328FUO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTW	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF035ZLA, ENCFF326OIK, ENCFF425BCQ	861513	ENCODE Processing Pipeline	46f300b41d4198e9056638c44cfce2fe		https://www.encodeproject.org/files/ENCFF328FUO/@@download/ENCFF328FUO.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth			extremely low read depth
ENCFF002CYN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				UBTF-human	DNA		see document	see document		False	2012-05-14	ENCODE												157971	ENCODE Consortium Analysis Working Group	f0874364421681ba4667eee47c4a2ccf		https://www.encodeproject.org/files/ENCFF002CYN/@@download/ENCFF002CYN.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF938IOJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				UBTF-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF377VMB, ENCFF696JUU, ENCFF976ZTX	180556	ENCODE Processing Pipeline	c9635f75ccfec61b8087434efc5ee93c		https://www.encodeproject.org/files/ENCFF938IOJ/@@download/ENCFF938IOJ.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CHY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGS	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												282154	ENCODE Consortium Analysis Working Group	f6ea8668fc006929a00e08ac85165285		https://www.encodeproject.org/files/ENCFF002CHY/@@download/ENCFF002CHY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	missing derived_from, biological replicates with identical biosample		
ENCFF544NRC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGS	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF270KWZ, ENCFF466MWY, ENCFF626GCR	288644	ENCODE Processing Pipeline	c83c2b45f1ee4fc7ad3a0bce44c11279		https://www.encodeproject.org/files/ENCFF544NRC/@@download/ENCFF544NRC.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample		
ENCFF002CLU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				E2F6-human	DNA		see document	see document		False	2011-07-18	ENCODE												495891	ENCODE Consortium Analysis Working Group	b27d8f475ea230f1eb132ba49fd7bffe		https://www.encodeproject.org/files/ENCFF002CLU/@@download/ENCFF002CLU.bed.gz	hg19			archived	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth	missing derived_from, biological replicates with identical biosample	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF917COW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				E2F6-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF072IAO, ENCFF318UXE, ENCFF373HDQ	534776	ENCODE Processing Pipeline	50091b97c0b4ff0828db52d7241d577e		https://www.encodeproject.org/files/ENCFF917COW/@@download/ENCFF917COW.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth	biological replicates with identical biosample	insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF002CNO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLX	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	CTCF-human	DNA		see document	see document		False	2011-07-18	ENCODE												780608	ENCODE Consortium Analysis Working Group	cf7d9a863c4693af019267a204431d14		https://www.encodeproject.org/files/ENCFF002CNO/@@download/ENCFF002CNO.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity	missing derived_from, biological replicates with identical biosample	insufficient read depth	missing control alignments
ENCFF527RGJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLX	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	CTCF-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF379KOF, ENCFF520BPM, ENCFF820XSG	663450	ENCODE Processing Pipeline	c73c3ed0d619a8a3d5cb1f076dba5ad8		https://www.encodeproject.org/files/ENCFF527RGJ/@@download/ENCFF527RGJ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	insufficient read depth	missing control alignments
ENCFF002CMW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE												255495	ENCODE Consortium Analysis Working Group	ac07a1c66425f00441835fc502af0c71		https://www.encodeproject.org/files/ENCFF002CMW/@@download/ENCFF002CMW.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample, missing derived_from	control insufficient read depth, insufficient read depth, insufficient replicate concordance	extremely low read depth
ENCFF926FUM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				YY1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF475ICG, ENCFF608RBZ, ENCFF897DAT	268837	ENCODE Processing Pipeline	73708b5a1b2700584fc477fdee757ee3		https://www.encodeproject.org/files/ENCFF926FUM/@@download/ENCFF926FUM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	control insufficient read depth, insufficient read depth, insufficient replicate concordance	extremely low read depth
ENCFF002CJP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLU	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				TAF7-human	DNA		see document	see document		False	2011-07-18	ENCODE												250288	ENCODE Consortium Analysis Working Group	097300ddc73b049c220683a8ad25e146		https://www.encodeproject.org/files/ENCFF002CJP/@@download/ENCFF002CJP.bed.gz	hg19			archived	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF963TZI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLU	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				TAF7-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF120OKL, ENCFF299QBC, ENCFF435PQI	256893	ENCODE Processing Pipeline	3fbc18f78ff0a967465e5f4f920095e7		https://www.encodeproject.org/files/ENCFF963TZI/@@download/ENCFF963TZI.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, low read depth	biological replicates with identical biosample		
ENCFF002CMV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKT	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												364508	ENCODE Consortium Analysis Working Group	ed11b14aaf5f989b08e1da0a481d73cf		https://www.encodeproject.org/files/ENCFF002CMV/@@download/ENCFF002CMV.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from	control insufficient read depth, poor library complexity, severe bottlenecking	extremely low read depth
ENCFF334FMW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKT	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				USF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF278MWT, ENCFF385JVK, ENCFF738UPC	343702	ENCODE Processing Pipeline	c8c6a2b189f45df818d83179943cc412		https://www.encodeproject.org/files/ENCFF334FMW/@@download/ENCFF334FMW.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample	control insufficient read depth, poor library complexity, severe bottlenecking	extremely low read depth
ENCFF002CZJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWV	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				GATA3-human	DNA		see document	see document		False	2011-10-29	ENCODE												161667	ENCODE Consortium Analysis Working Group	eef7fcc9c11b39e4bcfe336e069c07cd		https://www.encodeproject.org/files/ENCFF002CZJ/@@download/ENCFF002CZJ.bed.gz	hg19			released	low read length, inconsistent platforms	missing derived_from, biological replicates with identical biosample		
ENCFF002CXC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF000YSW, ENCFF000YSY	490515	ENCODE Consortium Analysis Working Group	a22f865a9c3be78243d4c596c899686a		https://www.encodeproject.org/files/ENCFF002CXC/@@download/ENCFF002CXC.bed.gz	hg19			archived	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF812QPN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF072BMK, ENCFF660EKS, ENCFF887IBL	482148	ENCODE Processing Pipeline	9508b48c5610d3882fe8c0e0e9bbd23e		https://www.encodeproject.org/files/ENCFF812QPN/@@download/ENCFF812QPN.bed.gz	hg19			released	low read length, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF885KLR	bed narrowPeak	optimal idr thresholded peaks	ENCSR663WAR	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				REST-human	DNA					False	2017-01-08	ENCODE				1, 2							ENCFF001TDO, ENCFF029AGK, ENCFF371JLL, ENCFF651ZPC	115171	ENCODE Processing Pipeline	f20eefcfc1e4a4ed95f2d2d253a7750b		https://www.encodeproject.org/files/ENCFF885KLR/@@download/ENCFF885KLR.bed.gz	hg19			released	low read length, low read depth, antibody characterized with exemption, mixed read lengths			
ENCFF002CLW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMD	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ELF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												547340	ENCODE Consortium Analysis Working Group	7f45cf21d10df1bd05cc423854e7a79f		https://www.encodeproject.org/files/ENCFF002CLW/@@download/ENCFF002CLW.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking	missing derived_from, biological replicates with identical biosample	poor library complexity, insufficient replicate concordance, severe bottlenecking	extremely low read depth
ENCFF564WEB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMD	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ELF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF445HQE, ENCFF634DSI, ENCFF875HXY	561894	ENCODE Processing Pipeline	eacf14da9a574f49fd8a632a87be3b4d		https://www.encodeproject.org/files/ENCFF564WEB/@@download/ENCFF564WEB.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking	biological replicates with identical biosample	poor library complexity, insufficient replicate concordance, severe bottlenecking	extremely low read depth
ENCFF002CHV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHK	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				SP1-human	DNA		see document	see document		False	2011-07-18	ENCODE												357355	ENCODE Consortium Analysis Working Group	f3352a8a478ebcbe54fda2f2becbd4eb		https://www.encodeproject.org/files/ENCFF002CHV/@@download/ENCFF002CHV.bed.gz	hg19			released	low read length	missing derived_from, missing raw data in replicate		
ENCFF450CNK	bed narrowPeak	optimal idr thresholded peaks	ENCSR203QEB	ChIP-seq	EFO:0002713	Panc1	cell line	Homo sapiens				CTCF-human	DNA					False	2017-07-21	ENCODE				1, 2							ENCFF001TDO, ENCFF032KSH, ENCFF255EDE, ENCFF563CXH	1438655	ENCODE Processing Pipeline	2c3f3e32ca1959fa2952b084fb115bed		https://www.encodeproject.org/files/ENCFF450CNK/@@download/ENCFF450CNK.bed.gz	hg19			released	mild to moderate bottlenecking	NTR biosample		
ENCFF002COP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RCOR1-human	DNA		see document	see document		False	2012-05-14	ENCODE												37449	ENCODE Consortium Analysis Working Group	38600372fb5e2c126dacf2f7e6c1b58b		https://www.encodeproject.org/files/ENCFF002COP/@@download/ENCFF002COP.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF898MUV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DZC	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				RCOR1-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF118LBD, ENCFF489ZRF, ENCFF906FFH	197171	ENCODE Processing Pipeline	590976200dc7a4de06cc75f4f0991b60		https://www.encodeproject.org/files/ENCFF898MUV/@@download/ENCFF898MUV.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CEE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARH	ChIP-seq	CL:0000515	skeletal muscle myoblast	primary cell	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE												42379	ENCODE Consortium Analysis Working Group	9e2473f434eaa01853b1ef380f0b3a3a		https://www.encodeproject.org/files/ENCFF002CEE/@@download/ENCFF002CEE.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms	missing derived_from		
ENCFF380TJK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ARH	ChIP-seq	CL:0000515	skeletal muscle myoblast	primary cell	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE				1, 2							ENCFF001TDO, ENCFF442AZU, ENCFF801WBW, ENCFF965BIL	40740	ENCODE Processing Pipeline	fd7bd8fb764b03f70431855e8c0e1d12		https://www.encodeproject.org/files/ENCFF380TJK/@@download/ENCFF380TJK.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms			
ENCFF371OGO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYP	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				ZNF384-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF745TRP, ENCFF824VGN, ENCFF967EHX	253028	ENCODE Processing Pipeline	d302851e104dd8ae0a5b6a49c01de18c		https://www.encodeproject.org/files/ENCFF371OGO/@@download/ENCFF371OGO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CVW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				FOS-human	DNA		see document	see document		False	2011-10-29	ENCODE												153814	ENCODE Consortium Analysis Working Group	6dcfdb373210f92a6f160dc9869db949		https://www.encodeproject.org/files/ENCFF002CVW/@@download/ENCFF002CVW.bed.gz	hg19			released		duplicate lane review, biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CXU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000FAD	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-10-29	ENCODE												367853	ENCODE Consortium Analysis Working Group	37b2c03ce75692dc617fa321d3f65c51		https://www.encodeproject.org/files/ENCFF002CXU/@@download/ENCFF002CXU.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF445ATY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DLB	ChIP-seq	EFO:0005346	GM13977	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF336VRJ, ENCFF637DKG, ENCFF807PRZ	750841	ENCODE Processing Pipeline	9cb6f944b978f18fb4831d56fa835b97		https://www.encodeproject.org/files/ENCFF445ATY/@@download/ENCFF445ATY.bed.gz	hg19			released	control low read depth, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	insufficient read depth	missing control alignments
ENCFF002CEZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ASE	ChIP-seq	CL:0002551	fibroblast of dermis	primary cell	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE				1, 2							ENCFF000CIX, ENCFF000CJA	131222	ENCODE Consortium Analysis Working Group	287ec89b9a3dbe365223c0b8815f8de0		https://www.encodeproject.org/files/ENCFF002CEZ/@@download/ENCFF002CEZ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth	
ENCFF156CFD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ASE	ChIP-seq	CL:0002551	fibroblast of dermis	primary cell	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-03-06	ENCODE				1, 2							ENCFF001TDO, ENCFF226DWG, ENCFF551TJN, ENCFF585OAO	236848	ENCODE Processing Pipeline	be0dd461421f8d0c3111eab20915f28c		https://www.encodeproject.org/files/ENCFF156CFD/@@download/ENCFF156CFD.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth	
ENCFF861DPF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EIC	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF079HZU, ENCFF781THQ, ENCFF960NKG	888678	ENCODE Processing Pipeline	2669e0f55968e04ed42440428a06c9df		https://www.encodeproject.org/files/ENCFF861DPF/@@download/ENCFF861DPF.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CIJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIJ	ChIP-seq	EFO:0002785	GM12891	cell line	Homo sapiens				SPI1-human	DNA		see document	see document		False	2011-07-18	ENCODE												1209797	ENCODE Consortium Analysis Working Group	08161bbdfa7636291c380aafb6743949		https://www.encodeproject.org/files/ENCFF002CIJ/@@download/ENCFF002CIJ.bed.gz	hg19			archived	control low read depth, low read length, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF526NYA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BIJ	ChIP-seq	EFO:0002785	GM12891	cell line	Homo sapiens				SPI1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF200SPQ, ENCFF427TMP, ENCFF461JCM	921797	ENCODE Processing Pipeline	3849889c70e956a9bcfb72dea5ee2b35		https://www.encodeproject.org/files/ENCFF526NYA/@@download/ENCFF526NYA.bed.gz	hg19			released	control low read depth, low read length, low read depth	biological replicates with identical biosample		
ENCFF002CKU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BOT	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2012-02-29	ENCODE												279113	ENCODE Consortium Analysis Working Group	944de00024e32607ac280a63ed81b7c1		https://www.encodeproject.org/files/ENCFF002CKU/@@download/ENCFF002CKU.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample, missing derived_from		
ENCFF854KPC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BOT	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF172OLJ, ENCFF543QRY, ENCFF658GRO	286172	ENCODE Processing Pipeline	d364c2fca920aaecc8c604ba03c2b902		https://www.encodeproject.org/files/ENCFF854KPC/@@download/ENCFF854KPC.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample		
ENCFF002CZM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWT	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				TCF7L2-human	DNA		see document	see document		False	2011-10-29	ENCODE												263955	ENCODE Consortium Analysis Working Group	79a1ee48bf1fd09b432fe6f730783b9d		https://www.encodeproject.org/files/ENCFF002CZM/@@download/ENCFF002CZM.bed.gz	hg19			released	low read length, inconsistent platforms	biological replicates with identical biosample, missing derived_from		
ENCFF888JDR	bed narrowPeak	optimal idr thresholded peaks	ENCSR843ZUP	ChIP-seq	CL:0002319	neural cell	in vitro differentiated cells	Homo sapiens				EP300-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF114UVX, ENCFF287VNA, ENCFF777EIJ	829546	ENCODE Processing Pipeline	c2b6e7c7a961f98ca60edd5977ebb6dc		https://www.encodeproject.org/files/ENCFF888JDR/@@download/ENCFF888JDR.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption	experiment not submitted to GEO	poor library complexity, severe bottlenecking	
ENCFF002CMS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TAF7-human	DNA		see document	see document		False	2011-07-18	ENCODE												69164	ENCODE Consortium Analysis Working Group	063d398298f51274e96c4d9e0cb76741		https://www.encodeproject.org/files/ENCFF002CMS/@@download/ENCFF002CMS.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	control insufficient read depth	
ENCFF034CQR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNM	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TAF7-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF070BNL, ENCFF271GZS, ENCFF611EGN	11755	ENCODE Processing Pipeline	7a373886ebf5e3085fc3dd43d0d662da		https://www.encodeproject.org/files/ENCFF034CQR/@@download/ENCFF034CQR.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	control insufficient read depth	
ENCFF002CEY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000APM	ChIP-seq	CL:0002551	fibroblast of dermis	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1, 2							ENCFF000CIQ, ENCFF000CIT	1034559	ENCODE Consortium Analysis Working Group	fbd1f02fde4cb1b1657d6375f4c28974		https://www.encodeproject.org/files/ENCFF002CEY/@@download/ENCFF002CEY.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	NTR biosample	insufficient read depth, severe bottlenecking	missing control alignments
ENCFF638OUB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000APM	ChIP-seq	CL:0002551	fibroblast of dermis	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1, 2							ENCFF001TDO, ENCFF180UME, ENCFF326AWX, ENCFF622MTR	769456	ENCODE Processing Pipeline	d417f489c6a7b0ca45096009a20f040e		https://www.encodeproject.org/files/ENCFF638OUB/@@download/ENCFF638OUB.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	NTR biosample	insufficient read depth, severe bottlenecking	missing control alignments
ENCFF002CDX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ATC	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-08-06	ENCODE												36455	ENCODE Consortium Analysis Working Group	84d947b6e6084a070659758411a4601d		https://www.encodeproject.org/files/ENCFF002CDX/@@download/ENCFF002CDX.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, inconsistent platforms	missing derived_from		
ENCFF751GGI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ATC	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-08-06	ENCODE				1, 2							ENCFF001TDO, ENCFF233VOB, ENCFF427OVX, ENCFF981RBQ	57412	ENCODE Processing Pipeline	7aedab00b9f60d6da4433352c11c9015		https://www.encodeproject.org/files/ENCFF751GGI/@@download/ENCFF751GGI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, inconsistent platforms			
ENCFF002CSX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECV	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-10-29	ENCODE												609315	ENCODE Consortium Analysis Working Group	11543569f44a558a29a45baff1a62ddf		https://www.encodeproject.org/files/ENCFF002CSX/@@download/ENCFF002CSX.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CZZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EYB	ChIP-seq	EFO:0002717	SH-SY5Y	cell line	Homo sapiens				GATA2-human	DNA		see document	see document		False	2011-10-29	ENCODE												780304	ENCODE Consortium Analysis Working Group	4aa5c42a6ba3fff0bc0e0e15e8662518		https://www.encodeproject.org/files/ENCFF002CZZ/@@download/ENCFF002CZZ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF220YOA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EYB	ChIP-seq	EFO:0002717	SH-SY5Y	cell line	Homo sapiens				GATA2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF086NRZ, ENCFF325FPK, ENCFF770MLZ	588315	ENCODE Processing Pipeline	79a450617ab593291997e806ddec83f4		https://www.encodeproject.org/files/ENCFF220YOA/@@download/ENCFF220YOA.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002CTE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECS	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				SMC3-human	DNA		see document	see document		False	2011-10-29	ENCODE												939484	ENCODE Consortium Analysis Working Group	4fbd9b20cc5b419c3086e3ca689fe9ee		https://www.encodeproject.org/files/ENCFF002CTE/@@download/ENCFF002CTE.bed.gz	hg19			released	low read length	biological replicates with identical biosample, missing derived_from		
ENCFF468CFJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AVB	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				HDAC2-human	DNA		see document	see document		False	2012-08-06	ENCODE				1, 2							ENCFF001TDO, ENCFF327ORV, ENCFF756FVQ, ENCFF848MDV	335244	ENCODE Processing Pipeline	88657f3ff9fbb5c3e01288866fcfba99		https://www.encodeproject.org/files/ENCFF468CFJ/@@download/ENCFF468CFJ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity			
ENCFF002CZP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHS	ChIP-seq	EFO:0002798	NB4	cell line	Homo sapiens				MAX-human	DNA		see document	see document		False	2011-10-29	ENCODE												796018	ENCODE Consortium Analysis Working Group	5f98fed6e18417827c6df77859c1cf0e		https://www.encodeproject.org/files/ENCFF002CZP/@@download/ENCFF002CZP.bed.gz	hg19			released	low read length	biological replicates with identical biosample, missing derived_from		
ENCFF002CIU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNH	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-07-18	ENCODE												1097021	ENCODE Consortium Analysis Working Group	0071595b80838346905bf40e3186b251		https://www.encodeproject.org/files/ENCFF002CIU/@@download/ENCFF002CIU.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	biological replicates with identical biosample, missing derived_from		missing control alignments
ENCFF402JJK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNH	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF289JUZ, ENCFF722MDG, ENCFF775VDO	888822	ENCODE Processing Pipeline	f1680aa6ab0504910c3a639cd354bd47		https://www.encodeproject.org/files/ENCFF402JJK/@@download/ENCFF402JJK.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms, moderate library complexity	biological replicates with identical biosample		missing control alignments
ENCFF002CLV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				EGR1-human	DNA		see document	see document		False	2011-07-18	ENCODE												754687	ENCODE Consortium Analysis Working Group	703c04df1ee5c8d5245c2751d593b317		https://www.encodeproject.org/files/ENCFF002CLV/@@download/ENCFF002CLV.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	control insufficient read depth	
ENCFF182QDI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNE	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				EGR1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF511ZEU, ENCFF537QVM, ENCFF671MRQ	630223	ENCODE Processing Pipeline	32b8aef967771ff7865454fc10cc9ab3		https://www.encodeproject.org/files/ENCFF182QDI/@@download/ENCFF182QDI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	control insufficient read depth	
ENCFF002COH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUI	ChIP-seq	EFO:0005333	GM08714	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2012-05-14	ENCODE												15776	ENCODE Consortium Analysis Working Group	c5aaead3929bf620507a079620b8e309		https://www.encodeproject.org/files/ENCFF002COH/@@download/ENCFF002COH.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF757CRW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUI	ChIP-seq	EFO:0005333	GM08714	cell line	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF238OBY, ENCFF448IAU, ENCFF624BNC	19404	ENCODE Processing Pipeline	1362aba67dcd62317c81e96eb29b58e0		https://www.encodeproject.org/files/ENCFF757CRW/@@download/ENCFF757CRW.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002DAI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DKU	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-03-17	ENCODE												89590	ENCODE Consortium Analysis Working Group	6520b2bab2bb01aa3703ef80e352b4c0		https://www.encodeproject.org/files/ENCFF002DAI/@@download/ENCFF002DAI.bed.gz	hg19			released	low read length, inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CFF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000APF	ChIP-seq	CL:0000062	osteoblast	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1, 2							ENCFF000CUV, ENCFF000CUX	1115884	ENCODE Consortium Analysis Working Group	ee768cfc76a01e009e13592fff19b850		https://www.encodeproject.org/files/ENCFF002CFF/@@download/ENCFF002CFF.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	NTR biosample		extremely low read depth
ENCFF609ETO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000APF	ChIP-seq	CL:0000062	osteoblast	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1, 2							ENCFF001TDO, ENCFF339XPB, ENCFF397OQE, ENCFF757USJ	771426	ENCODE Processing Pipeline	f18afe6d9ac8129dd7c728a8434763f5		https://www.encodeproject.org/files/ENCFF609ETO/@@download/ENCFF609ETO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	NTR biosample		extremely low read depth
ENCFF694SEF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMH	ChIP-seq	UBERON:0002048	lung	tissue	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF202BTH, ENCFF306ACX, ENCFF553SJU	349464	ENCODE Processing Pipeline	b1dde7461d8305cdcaa652804ba6b72d		https://www.encodeproject.org/files/ENCFF694SEF/@@download/ENCFF694SEF.bed.gz	hg19			released	mild to moderate bottlenecking			control extremely low read depth, extremely low read depth
ENCFF002DBN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMR	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												1753435	ENCODE Consortium Analysis Working Group	496fbddea93ea78e80800d1806a16089		https://www.encodeproject.org/files/ENCFF002DBN/@@download/ENCFF002DBN.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking	biological replicates with identical biosample, missing derived_from		
ENCFF176YNV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMR	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF574PXY, ENCFF853XFI, ENCFF993IKO	1333405	ENCODE Processing Pipeline	0b315f031f7a61a307a180b6362a29bf		https://www.encodeproject.org/files/ENCFF176YNV/@@download/ENCFF176YNV.bed.gz	hg19			released	low read length, mild to moderate bottlenecking	biological replicates with identical biosample		
ENCFF002DBI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMQ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-03-17	ENCODE												646105	ENCODE Consortium Analysis Working Group	079ff306c505ce89245d669add456154		https://www.encodeproject.org/files/ENCFF002DBI/@@download/ENCFF002DBI.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF695IQU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMQ	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF153LKX, ENCFF787DCF, ENCFF819JEC	568613	ENCODE Processing Pipeline	f9b5662aa7654ed4987bf58839091041		https://www.encodeproject.org/files/ENCFF695IQU/@@download/ENCFF695IQU.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF002CSV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DNR	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				NFYB-human	DNA		see document	see document		False	2011-10-29	ENCODE												176124	ENCODE Consortium Analysis Working Group	25d644731439a2bfeab2c0fd6d75a7ff		https://www.encodeproject.org/files/ENCFF002CSV/@@download/ENCFF002CSV.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CFQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHE	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	500 pM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE												28679	ENCODE Consortium Analysis Working Group	9e7323952052c92533c6411e299ea90a		https://www.encodeproject.org/files/ENCFF002CFQ/@@download/ENCFF002CFQ.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF841IFL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHE	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	500 pM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF277VVP, ENCFF660YDK, ENCFF875UKZ	37448	ENCODE Processing Pipeline	99a7cd47d14f820001e3c8498baebe7d		https://www.encodeproject.org/files/ENCFF841IFL/@@download/ENCFF841IFL.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CTO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECJ	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				ZKSCAN1-human	DNA		see document	see document		False	2012-05-14	ENCODE												108760	ENCODE Consortium Analysis Working Group	5599b7953ea928f46244fadce1a07df5		https://www.encodeproject.org/files/ENCFF002CTO/@@download/ENCFF002CTO.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CQB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EAN	ChIP-seq	EFO:0002786	GM12892	cell line	Homo sapiens	tumor necrosis factor	25 ng/mL	6 hour	RELA-human	DNA		see document	see document		False	2011-10-29	ENCODE												197610	ENCODE Consortium Analysis Working Group	a521d8594d1306ceb49e88c81a07b044		https://www.encodeproject.org/files/ENCFF002CQB/@@download/ENCFF002CQB.bed.gz	hg19			released		missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002CME	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NR2F2-human	DNA		see document	see document		False	2012-02-29	ENCODE												342030	ENCODE Consortium Analysis Working Group	30d95e9beac104673ddddd030762942b		https://www.encodeproject.org/files/ENCFF002CME/@@download/ENCFF002CME.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms	missing derived_from, biological replicates with identical biosample		
ENCFF255EOB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRS	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				NR2F2-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF622IDZ, ENCFF829WNA, ENCFF952DON	359095	ENCODE Processing Pipeline	261091a7cd8dcdf58adf98e3c6d32d2b		https://www.encodeproject.org/files/ENCFF255EOB/@@download/ENCFF255EOB.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms	biological replicates with identical biosample		
ENCFF002DCP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTA	ChIP-seq	CL:2000044	brain microvascular endothelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HJM, ENCFF001HJN	1165376	ENCODE Consortium Analysis Working Group	6be1b61f130ab7cd7c7fca31d9c6b187		https://www.encodeproject.org/files/ENCFF002DCP/@@download/ENCFF002DCP.bed.gz	hg19			archived	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth			missing control alignments
ENCFF065LHJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DTA	ChIP-seq	CL:2000044	brain microvascular endothelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF113ITH, ENCFF163DTZ, ENCFF222LZR	978732	ENCODE Processing Pipeline	75759957f5c6749d741f15b5790add81		https://www.encodeproject.org/files/ENCFF065LHJ/@@download/ENCFF065LHJ.bed.gz	hg19			released	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth			missing control alignments
ENCFF002CXB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MAFF-human	DNA		see document	see document		False	2012-05-14	ENCODE												556411	ENCODE Consortium Analysis Working Group	184a4a65c0bd447f90055b014d4e2e95		https://www.encodeproject.org/files/ENCFF002CXB/@@download/ENCFF002CXB.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF308IXJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGI	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MAFF-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF583NBG, ENCFF755LJZ, ENCFF864KPF	460910	ENCODE Processing Pipeline	681c4962a27c4e34b59fc8490e917288		https://www.encodeproject.org/files/ENCFF308IXJ/@@download/ENCFF308IXJ.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DDP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DXD	ChIP-seq	CL:0002306	epithelial cell of proximal tubule	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HWB, ENCFF001HWC	1158472	ENCODE Consortium Analysis Working Group	523f053e43d5ec00ebc98b367ea08e54		https://www.encodeproject.org/files/ENCFF002DDP/@@download/ENCFF002DDP.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth			
ENCFF470PNM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DXD	ChIP-seq	CL:0002306	epithelial cell of proximal tubule	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF077RDH, ENCFF447AUB, ENCFF943ZQC	985515	ENCODE Processing Pipeline	a32833a04672558d1873a39e47f77f68		https://www.encodeproject.org/files/ENCFF470PNM/@@download/ENCFF470PNM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth			
ENCFF002DBG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMM	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2012-08-27	ENCODE												493971	ENCODE Consortium Analysis Working Group	d958e2990ab4f5d6521c1dd479c8380a		https://www.encodeproject.org/files/ENCFF002DBG/@@download/ENCFF002DBG.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from	poor library complexity	
ENCFF682AWN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMM	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2012-08-27	ENCODE				1, 2							ENCFF001TDO, ENCFF434LJJ, ENCFF673PRZ, ENCFF844RNW	489114	ENCODE Processing Pipeline	2e5f5e8319184cefc7e36f4668843e09		https://www.encodeproject.org/files/ENCFF682AWN/@@download/ENCFF682AWN.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	poor library complexity	
ENCFF002CRD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECE	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-10-29	ENCODE												1287346	ENCODE Consortium Analysis Working Group	5a44b504fef5e1d30de5d83679e442a0		https://www.encodeproject.org/files/ENCFF002CRD/@@download/ENCFF002CRD.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF732XGR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECE	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				RAD21-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF190MWS, ENCFF656HTA, ENCFF680SHJ	1032500	ENCODE Processing Pipeline	31956512aead9d11c3421ce3768da5a2		https://www.encodeproject.org/files/ENCFF732XGR/@@download/ENCFF732XGR.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DBF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMP	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens	17β-estradiol	100 nM	45 minute	MYC-human	DNA		see document	see document		False	2011-03-17	ENCODE												261259	ENCODE Consortium Analysis Working Group	a4163c1c19e13c3d6733f2b633a77109		https://www.encodeproject.org/files/ENCFF002DBF/@@download/ENCFF002DBF.bed.gz	hg19			released	low read length, mild to moderate bottlenecking	missing derived_from, biological replicates with identical biosample		
ENCFF002DBM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DMV	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												1209029	ENCODE Consortium Analysis Working Group	160ceb49b8fe9537a5bbe91df7dd428a		https://www.encodeproject.org/files/ENCFF002DBM/@@download/ENCFF002DBM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF002CYV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOT	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	ethanol	0.01 percent	36.0 hour	FOS-human	DNA		see document	see document		False	2012-05-14	ENCODE												1310209	ENCODE Consortium Analysis Working Group	4de8383174f7c0b80d32d300a6cb8216		https://www.encodeproject.org/files/ENCFF002CYV/@@download/ENCFF002CYV.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization	missing derived_from, duplicate lane review, biological replicates with identical biosample		
ENCFF374FKH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DOT	ChIP-seq	EFO:0001200	MCF 10A	cell line	Homo sapiens	ethanol	0.01 percent	36.0 hour	FOS-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF099KUG, ENCFF581HNC, ENCFF658PKF	1202193	ENCODE Processing Pipeline	c4ab2acaa7200fb9186d11f8cd36679d		https://www.encodeproject.org/files/ENCFF374FKH/@@download/ENCFF374FKH.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, missing genetic modification characterization	duplicate lane review, biological replicates with identical biosample		
ENCFF002CZN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWU	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				ZNF217-human	DNA		see document	see document		False	2011-10-29	ENCODE												258184	ENCODE Consortium Analysis Working Group	3bb1a2b50508c062084f4916f14d2b83		https://www.encodeproject.org/files/ENCFF002CZN/@@download/ENCFF002CZN.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CLE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJN	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE												346642	ENCODE Consortium Analysis Working Group	fff8ca7b7979ca058d515c69e974c367		https://www.encodeproject.org/files/ENCFF002CLE/@@download/ENCFF002CLE.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF345GZF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJN	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				TAF1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF243XCD, ENCFF602IZZ, ENCFF999FLX	299587	ENCODE Processing Pipeline	832d28b82a0ce751fca92ccb2b2b795e		https://www.encodeproject.org/files/ENCFF345GZF/@@download/ENCFF345GZF.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002CMF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE												312017	ENCODE Consortium Analysis Working Group	efd79bfac03aaccd0ab8859080c6ee93		https://www.encodeproject.org/files/ENCFF002CMF/@@download/ENCFF002CMF.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	missing derived_from, biological replicates with identical biosample	control insufficient read depth, insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF558VPP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BMW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				REST-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF051ITR, ENCFF621KLV, ENCFF764CZH	239761	ENCODE Processing Pipeline	810c09de8b3c3fe318e8643e8c5b7e2a		https://www.encodeproject.org/files/ENCFF558VPP/@@download/ENCFF558VPP.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample	control insufficient read depth, insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF002DDB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUS	ChIP-seq	CL:0002327	mammary epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001HOZ, ENCFF001HPC	1121096	ENCODE Consortium Analysis Working Group	7622c2ed39a4594c2627b39e8f2a5075		https://www.encodeproject.org/files/ENCFF002DDB/@@download/ENCFF002DDB.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms			
ENCFF288RFS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUS	ChIP-seq	CL:0002327	mammary epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF924YJI, ENCFF929WKT, ENCFF938HQH	889632	ENCODE Processing Pipeline	7ce3d71abd0220f4289d7b0aced11dc4		https://www.encodeproject.org/files/ENCFF288RFS/@@download/ENCFF288RFS.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, inconsistent platforms			
ENCFF033EBX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNW	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SIX5-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF066ONU, ENCFF521MOS, ENCFF738BIG	62476	ENCODE Processing Pipeline	097bf841440b7b7f1ef9cb01097fd511		https://www.encodeproject.org/files/ENCFF033EBX/@@download/ENCFF033EBX.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample	insufficient read depth	
ENCFF002CSF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECM	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				RCOR1-human	DNA		see document	see document		False	2012-05-14	ENCODE												394882	ENCODE Consortium Analysis Working Group	e7c99d8ef0836c01ae22ce43c8fbe510		https://www.encodeproject.org/files/ENCFF002CSF/@@download/ENCFF002CSF.bed.gz	hg19			released	low read length	biological replicates with identical biosample, missing derived_from		
ENCFF002CDP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AKB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE												1005226	ENCODE Consortium Analysis Working Group	9c53d27a4d8c71629f8c1ebc059a8ff4		https://www.encodeproject.org/files/ENCFF002CDP/@@download/ENCFF002CDP.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, low read depth, mixed read lengths	missing derived_from	control insufficient read depth, insufficient read depth	
ENCFF833FTF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AKB	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1, 2							ENCFF001TDO, ENCFF551KNM, ENCFF706QLS, ENCFF934NEI	655789	ENCODE Processing Pipeline	265cfe705263baae508111a4114aab61		https://www.encodeproject.org/files/ENCFF833FTF/@@download/ENCFF833FTF.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, low read depth, mixed read lengths		control insufficient read depth, insufficient read depth	
ENCFF002CRW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDB	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				BRCA1-human	DNA		see document	see document		False	2011-10-29	ENCODE												211374	ENCODE Consortium Analysis Working Group	db45e389b7cf2fe24e3b9151c2c27b26		https://www.encodeproject.org/files/ENCFF002CRW/@@download/ENCFF002CRW.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002DCJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRP	ChIP-seq	EFO:0001160	GM12873	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2, 3							ENCFF001HFV, ENCFF001HFX, ENCFF001HGD	1028403	ENCODE Consortium Analysis Working Group	48b1254a59a376a9f198227e6e12d5c4		https://www.encodeproject.org/files/ENCFF002DCJ/@@download/ENCFF002DCJ.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity	missing raw data in replicate	insufficient read depth	missing control alignments
ENCFF295AWO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DRP	ChIP-seq	EFO:0001160	GM12873	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 3							ENCFF001TDO, ENCFF247DGH, ENCFF380UJY, ENCFF728WXF	816014	ENCODE Processing Pipeline	5a6de8426a7aa0847344dedf53b3ab41		https://www.encodeproject.org/files/ENCFF295AWO/@@download/ENCFF295AWO.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, moderate library complexity	missing raw data in replicate	insufficient read depth	missing control alignments
ENCFF002CRG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUQ	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				SUZ12-human	DNA		see document	see document		False	2011-10-29	ENCODE												121074	ENCODE Consortium Analysis Working Group	0c6b969de303af1a6f5dbe057e9aaacc		https://www.encodeproject.org/files/ENCFF002CRG/@@download/ENCFF002CRG.bed.gz	hg19			archived	borderline replicate concordance, low read depth	biological replicates with identical biosample, missing derived_from	insufficient read depth, insufficient read length	
ENCFF062SBW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUQ	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				SUZ12-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF380NLL, ENCFF651DQM, ENCFF940PJA	76539	ENCODE Processing Pipeline	0ceda548faa288b705b6a4c1090317b6		https://www.encodeproject.org/files/ENCFF062SBW/@@download/ENCFF062SBW.bed.gz	hg19			released	borderline replicate concordance, low read depth	biological replicates with identical biosample	insufficient read depth, insufficient read length	
ENCFF002CZO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHR	ChIP-seq	EFO:0002798	NB4	cell line	Homo sapiens				MYC-human	DNA		see document	see document		False	2011-10-29	ENCODE												642994	ENCODE Consortium Analysis Working Group	57ca7f5aea6377a2d1fef98fef2facd7		https://www.encodeproject.org/files/ENCFF002CZO/@@download/ENCFF002CZO.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CHX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				STAT5A-human	DNA		see document	see document		False	2012-02-29	ENCODE												165707	ENCODE Consortium Analysis Working Group	8d8a5ea1ca26b64a1b032cd30579244c		https://www.encodeproject.org/files/ENCFF002CHX/@@download/ENCFF002CHX.bed.gz	hg19			archived	low read length, inconsistent platforms	missing derived_from, biological replicates with identical biosample		
ENCFF492YMU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BQZ	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				STAT5A-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF447TGK, ENCFF772NOR, ENCFF876BBG	198904	ENCODE Processing Pipeline	c5f6d5dee5e25313d5e5dd85604244b8		https://www.encodeproject.org/files/ENCFF492YMU/@@download/ENCFF492YMU.bed.gz	hg19			released	low read length, inconsistent platforms	biological replicates with identical biosample		
ENCFF002DCD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DQN	ChIP-seq	EFO:0001099	Caco-2	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001GZV, ENCFF001HAC	955846	ENCODE Consortium Analysis Working Group	2b14a190e67d2dffff232a8955932ef7		https://www.encodeproject.org/files/ENCFF002DCD/@@download/ENCFF002DCD.bed.gz	hg19			archived	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth		insufficient read depth, severe bottlenecking	
ENCFF882YQH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DQN	ChIP-seq	EFO:0001099	Caco-2	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF146XLM, ENCFF450FYB, ENCFF532LQQ	759010	ENCODE Processing Pipeline	7251e79d7216a84cc06fd9967db74d19		https://www.encodeproject.org/files/ENCFF882YQH/@@download/ENCFF882YQH.bed.gz	hg19			released	moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth		insufficient read depth, severe bottlenecking	
ENCFF002CHE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRH	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MTA3-human	DNA		see document	see document		False	2012-02-29	ENCODE												278252	ENCODE Consortium Analysis Working Group	82bd6f9b6af45c6d54c8a54938b9ad60		https://www.encodeproject.org/files/ENCFF002CHE/@@download/ENCFF002CHE.bed.gz	hg19			archived	low read length, borderline replicate concordance, inconsistent platforms	missing derived_from, biological replicates with identical biosample		
ENCFF413VUC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BRH	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				MTA3-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF496UYK, ENCFF574RLW, ENCFF600RTA	322940	ENCODE Processing Pipeline	986211e162ebe80002d15d053f4e37f8		https://www.encodeproject.org/files/ENCFF413VUC/@@download/ENCFF413VUC.bed.gz	hg19			released	low read length, borderline replicate concordance, inconsistent platforms	biological replicates with identical biosample		
ENCFF002CZU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXL	ChIP-seq	EFO:0002713	Panc1	cell line	Homo sapiens				TCF7L2-human	DNA		see document	see document		False	2011-10-29	ENCODE												293784	ENCODE Consortium Analysis Working Group	015fc48737494dafbc1f83414136a0d5		https://www.encodeproject.org/files/ENCFF002CZU/@@download/ENCFF002CZU.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms	missing derived_from, biological replicates with identical biosample		
ENCFF835LPJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXL	ChIP-seq	EFO:0002713	Panc1	cell line	Homo sapiens				TCF7L2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF287WRJ, ENCFF349TEE, ENCFF449DID	334695	ENCODE Processing Pipeline	fc1aebabccf0ab50b0c6d56b89b23309		https://www.encodeproject.org/files/ENCFF835LPJ/@@download/ENCFF835LPJ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, inconsistent platforms	biological replicates with identical biosample		
ENCFF507XOB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AUC	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SUZ12-human	DNA		see document	see document		False	2012-08-06	ENCODE				1, 2							ENCFF001TDO, ENCFF692UFO, ENCFF731WWO, ENCFF809XWY	55253	ENCODE Processing Pipeline	cb67e6e280eb53c71e244ba182a543c1		https://www.encodeproject.org/files/ENCFF507XOB/@@download/ENCFF507XOB.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, mixed read lengths	missing raw data in replicate	insufficient read depth, poor library complexity, insufficient replicate concordance, severe bottlenecking	
ENCFF002CTP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECO	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				ZNF143-human	DNA		see document	see document		False	2011-10-29	ENCODE												181234	ENCODE Consortium Analysis Working Group	5dad024c53e1b5eac7fb473933432908		https://www.encodeproject.org/files/ENCFF002CTP/@@download/ENCFF002CTP.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CZK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWS	ChIP-seq	EFO:0001203	MCF-7	cell line	Homo sapiens				GATA3-human	DNA		see document	see document		False	2012-05-14	ENCODE												309354	ENCODE Consortium Analysis Working Group	f033be2179122e4ba03dac8731653c5b		https://www.encodeproject.org/files/ENCFF002CZK/@@download/ENCFF002CZK.bed.gz	hg19			released	low read length, mixed read lengths	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF618DDO	bed narrowPeak	optimal idr thresholded peaks	ENCSR822CEA	ChIP-seq	CL:0002319	neural cell	in vitro differentiated cells	Homo sapiens				CTCF-human	DNA					False	2014-07-07	ENCODE				1, 2							ENCFF001TDO, ENCFF496NEE, ENCFF762DPO, ENCFF900WDP	896089	ENCODE Processing Pipeline	dd513e682e5bfda211bce2fc3140257c		https://www.encodeproject.org/files/ENCFF618DDO/@@download/ENCFF618DDO.bed.gz	hg19			released	mild to moderate bottlenecking, moderate library complexity, antibody characterized with exemption	experiment not submitted to GEO	poor library complexity, severe bottlenecking	
ENCFF002CLX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKQ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ETS1-human	DNA		see document	see document		False	2011-07-18	ENCODE												212269	ENCODE Consortium Analysis Working Group	351582bb9b47db34b6c4e31180a91d50		https://www.encodeproject.org/files/ENCFF002CLX/@@download/ENCFF002CLX.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	missing derived_from, biological replicates with identical biosample	control insufficient read depth	
ENCFF076YZO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKQ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ETS1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF122POU, ENCFF128BVU, ENCFF927YRG	214196	ENCODE Processing Pipeline	124c1fdf52bdb35192e1849070affed9		https://www.encodeproject.org/files/ENCFF076YZO/@@download/ENCFF076YZO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample	control insufficient read depth	
ENCFF002CYK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TBP-human	DNA		see document	see document		False	2011-10-29	ENCODE												452402	ENCODE Consortium Analysis Working Group	679423057e1c8b5be5b7229891b84cb2		https://www.encodeproject.org/files/ENCFF002CYK/@@download/ENCFF002CYK.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF380FJL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EHA	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				TBP-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF523ODF, ENCFF545FAT, ENCFF891AHH	395661	ENCODE Processing Pipeline	119c19af83bd82e64f13fb0805f4b209		https://www.encodeproject.org/files/ENCFF380FJL/@@download/ENCFF380FJL.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF632NQI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFT	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GATA1-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF234GQW, ENCFF253DCO, ENCFF916MQB	261856	ENCODE Processing Pipeline	e0454bcca2f35d6ec9a1ad5aca4d6ebc		https://www.encodeproject.org/files/ENCFF632NQI/@@download/ENCFF632NQI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CLZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GABPA-human	DNA		see document	see document		False	2011-07-18	ENCODE												290707	ENCODE Consortium Analysis Working Group	e81f2714fb61f80af419bc5e45682868		https://www.encodeproject.org/files/ENCFF002CLZ/@@download/ENCFF002CLZ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample, missing derived_from	control insufficient read depth, insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF833FCO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BLO	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GABPA-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF276DPB, ENCFF442HXQ, ENCFF961HHN	265021	ENCODE Processing Pipeline	c99ce128576687bc8a287943d3473029		https://www.encodeproject.org/files/ENCFF833FCO/@@download/ENCFF833FCO.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, moderate library complexity	biological replicates with identical biosample	control insufficient read depth, insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF495YRW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJT	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF810TPO, ENCFF900AOD, ENCFF918SQN	187680	ENCODE Processing Pipeline	da6ed4c9e0e8cd425a6062a294c924dd		https://www.encodeproject.org/files/ENCFF495YRW/@@download/ENCFF495YRW.bed.gz	hg19			released	control low read depth, low read length, low read depth	biological replicates with identical biosample	insufficient read depth	
ENCFF002CYO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				UBTF-human	DNA		see document	see document		False	2012-05-14	ENCODE												351292	ENCODE Consortium Analysis Working Group	44267b4dcba8700327baacc860fcbc08		https://www.encodeproject.org/files/ENCFF002CYO/@@download/ENCFF002CYO.bed.gz	hg19			archived	low read length, low read depth, moderate library complexity, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF671DOL	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EFZ	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				UBTF-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF507ZLI, ENCFF512HLJ, ENCFF621XGL	356609	ENCODE Processing Pipeline	64dc4d3e4a826b90341dc7f40f98f446		https://www.encodeproject.org/files/ENCFF671DOL/@@download/ENCFF671DOL.bed.gz	hg19			released	low read length, low read depth, moderate library complexity, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CEF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ANS	ChIP-seq	CL:0002372	myotube	in vitro differentiated cells	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE												962316	ENCODE Consortium Analysis Working Group	f40df1c037735f92207b24ec5333b3db		https://www.encodeproject.org/files/ENCFF002CEF/@@download/ENCFF002CEF.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, NTR biosample	insufficient read depth	missing control alignments
ENCFF448MBM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ANS	ChIP-seq	CL:0002372	myotube	in vitro differentiated cells	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1, 2							ENCFF001TDO, ENCFF004UUL, ENCFF315KYG, ENCFF752POC	727915	ENCODE Processing Pipeline	159eaf588d42788b8035074162a5131a		https://www.encodeproject.org/files/ENCFF448MBM/@@download/ENCFF448MBM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	NTR biosample	insufficient read depth	missing control alignments
ENCFF002CTC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECX	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				RFX5-human	DNA		see document	see document		False	2011-10-29	ENCODE												491540	ENCODE Consortium Analysis Working Group	fd13b9cd1c4c3c3b238a627f35349f2f		https://www.encodeproject.org/files/ENCFF002CTC/@@download/ENCFF002CTC.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CTH	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDC	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				STAT3-human	DNA		see document	see document		False	2011-10-29	ENCODE												348525	ENCODE Consortium Analysis Working Group	9d04aa699bf6a49606986f1798d9d4f8		https://www.encodeproject.org/files/ENCFF002CTH/@@download/ENCFF002CTH.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CUA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEW	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens	forskolin and pyruvate		6.0 hour	ESRRA-human	DNA		see document	see document		False	2011-10-29	ENCODE												26113	ENCODE Consortium Analysis Working Group	07cbe352ae64551deba3c8aaf9c673ce		https://www.encodeproject.org/files/ENCFF002CUA/@@download/ENCFF002CUA.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CVQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BHLHE40-human	DNA		see document	see document		False	2011-10-29	ENCODE												558105	ENCODE Consortium Analysis Working Group	bc87d5c569c83dc64331f326019fb4d7		https://www.encodeproject.org/files/ENCFF002CVQ/@@download/ENCFF002CVQ.bed.gz	hg19			archived	low read length, inconsistent target of control experiment	duplicate lane review, biological replicates with identical biosample, missing derived_from		
ENCFF179NDS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EGV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				BHLHE40-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF077KRK, ENCFF159GKF, ENCFF368XWG	491465	ENCODE Processing Pipeline	8a7b06a474913c6365c15ef047a6db83		https://www.encodeproject.org/files/ENCFF179NDS/@@download/ENCFF179NDS.bed.gz	hg19			released	low read length, inconsistent target of control experiment	duplicate lane review, biological replicates with identical biosample		
ENCFF002CSS	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECL	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MAZ-human	DNA		see document	see document		False	2012-05-14	ENCODE												347669	ENCODE Consortium Analysis Working Group	90db788031b3e93cd69f1dcdac0ece8a		https://www.encodeproject.org/files/ENCFF002CSS/@@download/ENCFF002CSS.bed.gz	hg19			released	low read length, inconsistent platforms	missing derived_from, biological replicates with identical biosample		
ENCFF002DBU	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPF	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001GVI, ENCFF001GVJ	967359	ENCODE Consortium Analysis Working Group	fa369882e7ed1a19021d3f1729c4c598		https://www.encodeproject.org/files/ENCFF002DBU/@@download/ENCFF002DBU.bed.gz	hg19			archived	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth		poor library complexity, severe bottlenecking	extremely low read depth
ENCFF944VAE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPF	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-01-17	ENCODE				1, 2							ENCFF001TDO, ENCFF096GLZ, ENCFF115DAO, ENCFF605UGV	742448	ENCODE Processing Pipeline	27944057da59b906cd704d994fbe20b7		https://www.encodeproject.org/files/ENCFF944VAE/@@download/ENCFF944VAE.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, control low read depth, low read depth		poor library complexity, severe bottlenecking	extremely low read depth
ENCFF002CTJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVF	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				TCF7L2-human	DNA		see document	see document		False	2011-10-29	ENCODE												76399	ENCODE Consortium Analysis Working Group	2e76c88be228740a9d90c18ab9105425		https://www.encodeproject.org/files/ENCFF002CTJ/@@download/ENCFF002CTJ.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF598ZLV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BSK	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2012-09-10	ENCODE				1, 2							ENCFF001TDO, ENCFF101JCE, ENCFF514HVB, ENCFF866YBG	676842	ENCODE Processing Pipeline	3f6042bd4ab7bb38270b70206d900dd3		https://www.encodeproject.org/files/ENCFF598ZLV/@@download/ENCFF598ZLV.bed.gz	hg19			released		biological replicates with identical biosample		missing control alignments
ENCFF002CEO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AQG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HDAC2-human	DNA		see document	see document		False	2012-03-06	ENCODE												121425	ENCODE Consortium Analysis Working Group	636ef8b5c6f6f03df33fbf7456260d38		https://www.encodeproject.org/files/ENCFF002CEO/@@download/ENCFF002CEO.bed.gz	hg19			archived	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth	missing derived_from		
ENCFF657VJX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AQG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				HDAC2-human	DNA		see document	see document		False	2012-03-06	ENCODE				1, 2							ENCFF001TDO, ENCFF233XEO, ENCFF680CDC, ENCFF930KIS	93415	ENCODE Processing Pipeline	e7464d52ba1f458c1b5e6a0c4a1cfecd		https://www.encodeproject.org/files/ENCFF657VJX/@@download/ENCFF657VJX.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, low read length, mild to moderate bottlenecking, inconsistent platforms, control low read depth, low read depth			
ENCFF002CSQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECK	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF000XGS, ENCFF000XGT	365040	ENCODE Consortium Analysis Working Group	99d5d60d4701464dd198090fa82bf9e1		https://www.encodeproject.org/files/ENCFF002CSQ/@@download/ENCFF002CSQ.bed.gz	hg19			archived	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, inconsistent mapped reads lengths		
ENCFF405BKG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECK	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MAFK-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF123SPG, ENCFF742HOV, ENCFF796KTU	323459	ENCODE Processing Pipeline	883649f54d85c599af51713df8eb0cf7		https://www.encodeproject.org/files/ENCFF405BKG/@@download/ENCFF405BKG.bed.gz	hg19			released	low read length, borderline replicate concordance, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, inconsistent mapped reads lengths		
ENCFF126CZP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AUZ	ChIP-seq	CL:0000236	B cell	primary cell	Homo sapiens				EZH2-human	DNA		see document	see document		False	2012-08-06	ENCODE				1, 2							ENCFF001TDO, ENCFF499CWW, ENCFF755RMC, ENCFF814VNW	52060	ENCODE Processing Pipeline	225d1f6f7e7aff79d4fd72818320f140		https://www.encodeproject.org/files/ENCFF126CZP/@@download/ENCFF126CZP.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity		poor library complexity, severe bottlenecking	extremely low read depth
ENCFF587OBC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BUW	ChIP-seq	EFO:0002793	HL-60	cell line	Homo sapiens				SPI1-human	DNA		see document	see document		False	2012-09-10	ENCODE				1, 2							ENCFF001TDO, ENCFF214RQX, ENCFF446FKN, ENCFF670PLH	1034005	ENCODE Processing Pipeline	cba9d4271e9a0b4f2f4e5cdbdb04fa29		https://www.encodeproject.org/files/ENCFF587OBC/@@download/ENCFF587OBC.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, low read depth	biological replicates with identical biosample		
ENCFF002CUG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEC	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAFF-human	DNA		see document	see document		False	2011-10-29	ENCODE												899877	ENCODE Consortium Analysis Working Group	30bb0d0ccfc211e2cda914387df1789f		https://www.encodeproject.org/files/ENCFF002CUG/@@download/ENCFF002CUG.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF684ASX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEC	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAFF-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF003CWL, ENCFF175OAK, ENCFF611VKE	830843	ENCODE Processing Pipeline	78e68fd09e381d00943cc88af76f83b7		https://www.encodeproject.org/files/ENCFF684ASX/@@download/ENCFF684ASX.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002CTV	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEX	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens	forskolin and pyruvate		6.0 hour	CEBPB-human	DNA		see document	see document		False	2011-10-29	ENCODE												354905	ENCODE Consortium Analysis Working Group	bb8883f34158c90f74f0db1fbee71fcb		https://www.encodeproject.org/files/ENCFF002CTV/@@download/ENCFF002CTV.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CUF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEI	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-10-29	ENCODE												794821	ENCODE Consortium Analysis Working Group	3fce70d8366cc2820ce9610b64690f83		https://www.encodeproject.org/files/ENCFF002CUF/@@download/ENCFF002CUF.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF085GOJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEI	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF185JWL, ENCFF716IBZ, ENCFF951EMI	714125	ENCODE Processing Pipeline	88fcc0c2c3af76c5a6ecc6e6f7cc3b2c		https://www.encodeproject.org/files/ENCFF085GOJ/@@download/ENCFF085GOJ.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DDR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DXQ	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HXH, ENCFF001HXM	1039198	ENCODE Consortium Analysis Working Group	6801e70f2927cea7c72e99d45ebc7727		https://www.encodeproject.org/files/ENCFF002DDR/@@download/ENCFF002DDR.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth	
ENCFF316NHY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DXQ	ChIP-seq	EFO:0003072	SK-N-SH	cell line	Homo sapiens	all-trans-retinoic acid	6 μM	48 hour	CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF020JUP, ENCFF359EWI, ENCFF655SOH	815709	ENCODE Processing Pipeline	84970e70aa32e04a1ed816bdb3e001b6		https://www.encodeproject.org/files/ENCFF316NHY/@@download/ENCFF316NHY.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth	
ENCFF348RKC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPE	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	ethanol	0.02 percent	1 hour	SP1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF075ZQI, ENCFF753PAD, ENCFF831GEW	761123	ENCODE Processing Pipeline	e5f585bcfb86b66fb3b638e3e0a04b73		https://www.encodeproject.org/files/ENCFF348RKC/@@download/ENCFF348RKC.bed.gz	hg19			released	low read length	biological replicates with identical biosample		
ENCFF002CMD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MEF2A-human	DNA		see document	see document		False	2011-07-18	ENCODE												131373	ENCODE Consortium Analysis Working Group	86f7faf8431745bababf549e8455935e		https://www.encodeproject.org/files/ENCFF002CMD/@@download/ENCFF002CMD.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing derived_from, biological replicates with identical biosample	control insufficient read depth	missing control alignments
ENCFF577UJR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNV	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				MEF2A-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF307TQZ, ENCFF435ESC, ENCFF825VQR	22863	ENCODE Processing Pipeline	5e9c735464c7e63dba6ce09405a9eec0		https://www.encodeproject.org/files/ENCFF577UJR/@@download/ENCFF577UJR.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample	control insufficient read depth	missing control alignments
ENCFF002CUB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EEV	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens	forskolin and pyruvate		6.0 hour	NR3C1-human	DNA		see document	see document		False	2011-10-29	ENCODE												16349	ENCODE Consortium Analysis Working Group	7d2821244ae03f55f8d52105ee912ec3		https://www.encodeproject.org/files/ENCFF002CUB/@@download/ENCFF002CUB.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CMM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BGX	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				SIX5-human	DNA		see document	see document		False	2011-07-18	ENCODE												94185	ENCODE Consortium Analysis Working Group	1f0494497f4bf36bc3b8cda4c0c37dde		https://www.encodeproject.org/files/ENCFF002CMM/@@download/ENCFF002CMM.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CJC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKK	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-07-18	ENCODE												172643	ENCODE Consortium Analysis Working Group	3ba20ad9a7095da9d8291d8161c18e87		https://www.encodeproject.org/files/ENCFF002CJC/@@download/ENCFF002CJC.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample, missing derived_from		
ENCFF843SYD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKK	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				EP300-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF380YEP, ENCFF532VDQ, ENCFF684GVN	241631	ENCODE Processing Pipeline	c06ac8027f55d91b669cebbc14184c53		https://www.encodeproject.org/files/ENCFF843SYD/@@download/ENCFF843SYD.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance	biological replicates with identical biosample		
ENCFF002CTI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDD	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				TBP-human	DNA		see document	see document		False	2011-10-29	ENCODE												461868	ENCODE Consortium Analysis Working Group	78449b084d8578fa46731cd08b9efba4		https://www.encodeproject.org/files/ENCFF002CTI/@@download/ENCFF002CTI.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample		
ENCFF002CFO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPX	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	100 nM	1 hour	FOXA1-human	DNA		see document	see document		False	2012-02-29	ENCODE												204700	ENCODE Consortium Analysis Working Group	c0c762bbe57d6947f4cf6f91af263c70		https://www.encodeproject.org/files/ENCFF002CFO/@@download/ENCFF002CFO.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF441MEM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BPX	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	100 nM	1 hour	FOXA1-human	DNA		see document	see document		False	2012-02-29	ENCODE				1, 2							ENCFF001TDO, ENCFF119XQX, ENCFF432ZAJ, ENCFF953BDX	161662	ENCODE Processing Pipeline	8ae46d4df8dd7ba66eab83564b22fbda		https://www.encodeproject.org/files/ENCFF441MEM/@@download/ENCFF441MEM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DDC	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUU	ChIP-seq	CL:0002555	fibroblast of mammary gland	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HPN, ENCFF001HPS	1096364	ENCODE Consortium Analysis Working Group	e8eaeec69dc33f8f1e7163092af40675		https://www.encodeproject.org/files/ENCFF002DDC/@@download/ENCFF002DDC.bed.gz	hg19			archived	low read length, low read depth, inconsistent platforms		control insufficient read depth, insufficient read depth	
ENCFF438XHB	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DUU	ChIP-seq	CL:0002555	fibroblast of mammary gland	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF090XCI, ENCFF681HOI, ENCFF831MNI	812710	ENCODE Processing Pipeline	f427a82e1ac58a95b8ba78e63a5fed5b		https://www.encodeproject.org/files/ENCFF438XHB/@@download/ENCFF438XHB.bed.gz	hg19			released	low read length, low read depth, inconsistent platforms		control insufficient read depth, insufficient read depth	
ENCFF365JMJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUN	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				ZNF274-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF015DMU, ENCFF374BCB, ENCFF784FBR	26071	ENCODE Processing Pipeline	f96107d880775c7908258193d11e8e3e		https://www.encodeproject.org/files/ENCFF365JMJ/@@download/ENCFF365JMJ.bed.gz	hg19			released	low read length, borderline replicate concordance	biological replicates with identical biosample		extremely low read depth
ENCFF002CMZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BME	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZBTB7A-human	DNA		see document	see document		False	2011-07-18	ENCODE												441449	ENCODE Consortium Analysis Working Group	f57e8302a733b1d28d1d8fc097de34cd		https://www.encodeproject.org/files/ENCFF002CMZ/@@download/ENCFF002CMZ.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from	control insufficient read depth	
ENCFF706ISJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BME	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ZBTB7A-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF101JWH, ENCFF412YTK, ENCFF644MVI	533464	ENCODE Processing Pipeline	ee9d4887416c08e558ca9ce0f11d8c69		https://www.encodeproject.org/files/ENCFF706ISJ/@@download/ENCFF706ISJ.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample	control insufficient read depth	
ENCFF002CRM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EVB	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				ELK4-human	DNA		see document	see document		False	2011-10-29	ENCODE												38731	ENCODE Consortium Analysis Working Group	919096356b9185293cad6166f6b760a1		https://www.encodeproject.org/files/ENCFF002CRM/@@download/ENCFF002CRM.bed.gz	hg19			released	low read length	missing derived_from, biological replicates with identical biosample		
ENCFF002CWQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GATA2-human	DNA		see document	see document		False	2011-10-29	ENCODE												209407	ENCODE Consortium Analysis Working Group	36c61da27aae1632856794e5867b58b3		https://www.encodeproject.org/files/ENCFF002CWQ/@@download/ENCFF002CWQ.bed.gz	hg19			archived		missing derived_from, biological replicates with identical biosample	insufficient read depth, insufficient replicate concordance, insufficient read length	
ENCFF732HOE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EWG	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				GATA2-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF061TTI, ENCFF163ZFQ, ENCFF717ZNF	185950	ENCODE Processing Pipeline	0a5986cb974e654436fe293de05e5274		https://www.encodeproject.org/files/ENCFF732HOE/@@download/ENCFF732HOE.bed.gz	hg19			released		biological replicates with identical biosample	insufficient read depth, insufficient replicate concordance, insufficient read length	
ENCFF002CST	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ECU	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				MXI1-human	DNA		see document	see document		False	2011-10-29	ENCODE												310642	ENCODE Consortium Analysis Working Group	01dcdbaede61ced878ea89eabffe613c		https://www.encodeproject.org/files/ENCFF002CST/@@download/ENCFF002CST.bed.gz	hg19			released	low read length	biological replicates with identical biosample, missing derived_from		
ENCFF449NOT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000AUV	ChIP-seq	CL:0000236	B cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-06	ENCODE				1, 2							ENCFF001TDO, ENCFF209GQK, ENCFF485ZSI, ENCFF603MIK	887114	ENCODE Processing Pipeline	00020b4b010d07d38f7110db620ee494		https://www.encodeproject.org/files/ENCFF449NOT/@@download/ENCFF449NOT.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	missing raw data in replicate		missing control alignments
ENCFF437LHG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ATN	ChIP-seq	CL:0001054	CD14-positive monocyte	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-08-06	ENCODE				1, 2							ENCFF001TDO, ENCFF097DFJ, ENCFF446PEN, ENCFF920STO	692739	ENCODE Processing Pipeline	d352e31174798d828b982e6429bbb48e		https://www.encodeproject.org/files/ENCFF437LHG/@@download/ENCFF437LHG.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity		insufficient read depth	
ENCFF002CSP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDH	ChIP-seq	EFO:0002791	HeLa-S3	cell line	Homo sapiens				JUND-human	DNA		see document	see document		False	2011-10-29	ENCODE												750595	ENCODE Consortium Analysis Working Group	8382b1d2abe95d66c1230cf762e7e99e		https://www.encodeproject.org/files/ENCFF002CSP/@@download/ENCFF002CSP.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CRP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EUY	ChIP-seq	EFO:0001182	HEK293	cell line	Homo sapiens				TCF7L2-human	DNA		see document	see document		False	2011-10-29	ENCODE												227110	ENCODE Consortium Analysis Working Group	bb39e8c267d6e62ca145de79bc2057f0		https://www.encodeproject.org/files/ENCFF002CRP/@@download/ENCFF002CRP.bed.gz	hg19			released	low read length, inconsistent platforms	missing derived_from, biological replicates with identical biosample		
ENCFF002DDF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DVH	ChIP-seq	CL:0002518	kidney epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HQY, ENCFF001HRF	826485	ENCODE Consortium Analysis Working Group	239dcdae7b518c7180b066742c0cbc90		https://www.encodeproject.org/files/ENCFF002DDF/@@download/ENCFF002DDF.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF168VBK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DVH	ChIP-seq	CL:0002518	kidney epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF444ZJW, ENCFF536XBD, ENCFF583GIR	708472	ENCODE Processing Pipeline	d51a91608457f8beecc7c702e4116d49		https://www.encodeproject.org/files/ENCFF168VBK/@@download/ENCFF168VBK.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth, poor library complexity, severe bottlenecking	
ENCFF002CTT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDT	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				BHLHE40-human	DNA		see document	see document		False	2011-10-29	ENCODE												371442	ENCODE Consortium Analysis Working Group	f2dc9c986f80d2c0f13dc34647ca75cf		https://www.encodeproject.org/files/ENCFF002CTT/@@download/ENCFF002CTT.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	duplicate lane review, biological replicates with identical biosample, missing derived_from		
ENCFF108RWG	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDT	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				BHLHE40-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF242UCP, ENCFF421CEV, ENCFF919QSI	326205	ENCODE Processing Pipeline	fc82e797bbc6c57a75a31c87bf1c63dd		https://www.encodeproject.org/files/ENCFF108RWG/@@download/ENCFF108RWG.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	duplicate lane review, biological replicates with identical biosample		
ENCFF002CFD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ANO	ChIP-seq	CL:0002553	fibroblast of lung	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE												780549	ENCODE Consortium Analysis Working Group	5fa838083c1a254895f586ec45178b63		https://www.encodeproject.org/files/ENCFF002CFD/@@download/ENCFF002CFD.bed.gz	hg19			archived	control low read depth, low read length, low read depth, mild to moderate bottlenecking, borderline replicate concordance	missing derived_from	poor library complexity, severe bottlenecking	extremely low read depth, missing control alignments
ENCFF734DZF	bed narrowPeak	optimal idr thresholded peaks	ENCSR000ANO	ChIP-seq	CL:0002553	fibroblast of lung	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-02-10	ENCODE				1, 2							ENCFF001TDO, ENCFF005HNY, ENCFF180IOD, ENCFF579SVE	632017	ENCODE Processing Pipeline	19b0f552c264539be3097aab1fcfe955		https://www.encodeproject.org/files/ENCFF734DZF/@@download/ENCFF734DZF.bed.gz	hg19			released	control low read depth, low read length, low read depth, mild to moderate bottlenecking, borderline replicate concordance		poor library complexity, severe bottlenecking	extremely low read depth, missing control alignments
ENCFF002DDQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DXI	ChIP-seq	CL:0002328	bronchial epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001HWO, ENCFF001HWP	837045	ENCODE Consortium Analysis Working Group	b5b6873cc98fdcb33c369f06cb4ce76b		https://www.encodeproject.org/files/ENCFF002DDQ/@@download/ENCFF002DDQ.bed.gz	hg19			archived	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth, severe bottlenecking	extremely low read depth
ENCFF401ONY	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DXI	ChIP-seq	CL:0002328	bronchial epithelial cell	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF116ONS, ENCFF453SOO, ENCFF821CAK	707859	ENCODE Processing Pipeline	bd9ebf6bcf664839e8f8464a465ebea0		https://www.encodeproject.org/files/ENCFF401ONY/@@download/ENCFF401ONY.bed.gz	hg19			released	control low read depth, low read length, mild to moderate bottlenecking, inconsistent platforms, moderate library complexity		insufficient read depth, severe bottlenecking	extremely low read depth
ENCFF002CFR	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHF	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	50 nM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE												569705	ENCODE Consortium Analysis Working Group	3c217e8778ef5e9e7a24ade03de7f67f		https://www.encodeproject.org/files/ENCFF002CFR/@@download/ENCFF002CFR.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, missing derived_from		
ENCFF648ZNE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BHF	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	50 nM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF185AVK, ENCFF424TUG, ENCFF680RJL	458466	ENCODE Processing Pipeline	3e28d89d949807a1ffc27397ebde933f		https://www.encodeproject.org/files/ENCFF648ZNE/@@download/ENCFF648ZNE.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample		
ENCFF002DBW	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPM	ChIP-seq	EFO:0006270	AG04450	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												964836	ENCODE Consortium Analysis Working Group	fe0348a4dfcb5662bba851d5850e871a		https://www.encodeproject.org/files/ENCFF002DBW/@@download/ENCFF002DBW.bed.gz	hg19			archived	control low read depth, low read length, low read depth, inconsistent platforms	missing derived_from		
ENCFF681OWQ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DPM	ChIP-seq	EFO:0006270	AG04450	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE				1, 2							ENCFF001TDO, ENCFF121QUN, ENCFF709XOM, ENCFF940KDS	780687	ENCODE Processing Pipeline	9785a54dd69bb39cb46f95c625e0c1fb		https://www.encodeproject.org/files/ENCFF681OWQ/@@download/ENCFF681OWQ.bed.gz	hg19			released	control low read depth, low read length, low read depth, inconsistent platforms			
ENCFF002CQZ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBS	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				MAFK-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF000WTL, ENCFF000WTO	289621	ENCODE Consortium Analysis Working Group	9188dfc8c8f29afab3845d1a3f90b18c		https://www.encodeproject.org/files/ENCFF002CQZ/@@download/ENCFF002CQZ.bed.gz	hg19			archived	file validation error, low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, mismatched file status		
ENCFF646GCM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EBS	ChIP-seq	EFO:0003042	H1-hESC	stem cell	Homo sapiens				MAFK-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF039SJR, ENCFF671DTY, ENCFF977JIT	237494	ENCODE Processing Pipeline	108afcdf21f46b3d015de451be0f4d11		https://www.encodeproject.org/files/ENCFF646GCM/@@download/ENCFF646GCM.bed.gz	hg19			released	file validation error, low read length, mild to moderate bottlenecking, low read depth, inconsistent target of control experiment	biological replicates with identical biosample, mismatched file status		
ENCFF002DAJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DKV	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												943769	ENCODE Consortium Analysis Working Group	f05d542a177ee7a769c68a1f4e553b67		https://www.encodeproject.org/files/ENCFF002DAJ/@@download/ENCFF002DAJ.bed.gz	hg19			released	inconsistent platforms	missing derived_from, biological replicates with identical biosample	insufficient read length	
ENCFF002DAA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXZ	ChIP-seq	EFO:0002717	SH-SY5Y	cell line	Homo sapiens				GATA3-human	DNA		see document	see document		False	2011-10-29	ENCODE												377422	ENCODE Consortium Analysis Working Group	cf3f4c61f56f1eb7476f8b52534291a5		https://www.encodeproject.org/files/ENCFF002DAA/@@download/ENCFF002DAA.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample, missing derived_from		
ENCFF269JRM	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EXZ	ChIP-seq	EFO:0002717	SH-SY5Y	cell line	Homo sapiens				GATA3-human	DNA		see document	see document		False	2011-10-29	ENCODE				1, 2							ENCFF001TDO, ENCFF272ARC, ENCFF601TVP, ENCFF646DRT	345418	ENCODE Processing Pipeline	3ab06a65b20e88ae95e4e386e2a9a886		https://www.encodeproject.org/files/ENCFF269JRM/@@download/ENCFF269JRM.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, moderate library complexity	biological replicates with identical biosample		
ENCFF002CNX	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKY	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	FOXA1-human	DNA		see document	see document		False	2011-07-18	ENCODE												790455	ENCODE Consortium Analysis Working Group	354cc51173bb51f774fddb577c87c857		https://www.encodeproject.org/files/ENCFF002CNX/@@download/ENCFF002CNX.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample, missing derived_from		
ENCFF132WOI	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BKY	ChIP-seq	EFO:0001247	T47D	cell line	Homo sapiens	dimethyl sulfoxide	0.02 percent	1 hour	FOXA1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF038SPJ, ENCFF526YXC, ENCFF544QLN	811564	ENCODE Processing Pipeline	ba6fe4d9eb5bab786a9c237bd412de9f		https://www.encodeproject.org/files/ENCFF132WOI/@@download/ENCFF132WOI.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF002DBA	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DLW	ChIP-seq	CL:0002618	endothelial cell of umbilical vein	primary cell	Homo sapiens				CTCF-human	DNA		see document	see document		False	2011-03-17	ENCODE												891419	ENCODE Consortium Analysis Working Group	d488647dab782e3362984b6656a72d0b		https://www.encodeproject.org/files/ENCFF002DBA/@@download/ENCFF002DBA.bed.gz	hg19			released		biological replicates with identical biosample, missing derived_from	insufficient read length	
ENCFF002CUK	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDN	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAZ-human	DNA		see document	see document		False	2012-05-14	ENCODE												312639	ENCODE Consortium Analysis Working Group	439832b6bb55ca22b47907260f823928		https://www.encodeproject.org/files/ENCFF002CUK/@@download/ENCFF002CUK.bed.gz	hg19			archived	borderline replicate concordance, moderate library complexity, inconsistent target of control experiment, low read length, mild to moderate bottlenecking, low read depth	missing derived_from, biological replicates with identical biosample		
ENCFF421SEJ	bed narrowPeak	optimal idr thresholded peaks	ENCSR000EDN	ChIP-seq	EFO:0001187	HepG2	cell line	Homo sapiens				MAZ-human	DNA		see document	see document		False	2012-05-14	ENCODE				1, 2							ENCFF001TDO, ENCFF479LKN, ENCFF668ITU, ENCFF969CUT	285287	ENCODE Processing Pipeline	5b4317e08a15d3d41a087c68fcdcf641		https://www.encodeproject.org/files/ENCFF421SEJ/@@download/ENCFF421SEJ.bed.gz	hg19			released	borderline replicate concordance, moderate library complexity, inconsistent target of control experiment, low read length, mild to moderate bottlenecking, low read depth	biological replicates with identical biosample		
ENCFF721SDD	bed narrowPeak	optimal idr thresholded peaks	ENCSR000DYR	ChIP-seq	EFO:0002784	GM12878	cell line	Homo sapiens				CUX1-human	DNA		see document	see document		False	2012-08-20	ENCODE				1, 2							ENCFF001TDO, ENCFF253OOR, ENCFF452BDW, ENCFF881ZSX	144927	ENCODE Processing Pipeline	2baa963f5a20127cf4c51d1458e74e6f		https://www.encodeproject.org/files/ENCFF721SDD/@@download/ENCFF721SDD.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample	insufficient replicate concordance	
ENCFF917ZPO	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BSE	ChIP-seq	EFO:0002824	HCT116	cell line	Homo sapiens				CTCF-human	DNA		see document	see document		False	2012-09-10	ENCODE				1, 2							ENCFF001TDO, ENCFF021NMZ, ENCFF214AAT, ENCFF971PWB	602672	ENCODE Processing Pipeline	eb204541dbdac5aa54d530917f198a18		https://www.encodeproject.org/files/ENCFF917ZPO/@@download/ENCFF917ZPO.bed.gz	hg19			released	mild to moderate bottlenecking, borderline replicate concordance, low read depth, moderate library complexity	biological replicates with identical biosample	insufficient read depth	missing control alignments
ENCFF002CFT	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJR	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	100 nM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE												383261	ENCODE Consortium Analysis Working Group	ed04dad9591a53ab86cf4c71d4b97597		https://www.encodeproject.org/files/ENCFF002CFT/@@download/ENCFF002CFT.bed.gz	hg19			archived	low read length, low read depth, inconsistent target of control experiment	missing derived_from, biological replicates with identical biosample	insufficient read depth	
ENCFF080RMP	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BJR	ChIP-seq	EFO:0001086	A549	cell line	Homo sapiens	dexamethasone	100 nM	1 hour	NR3C1-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF033RSK, ENCFF631NXF, ENCFF664XHQ	222072	ENCODE Processing Pipeline	cf7d2954902a39818ff7b875dc307a9e		https://www.encodeproject.org/files/ENCFF080RMP/@@download/ENCFF080RMP.bed.gz	hg19			released	low read length, low read depth, inconsistent target of control experiment	biological replicates with identical biosample	insufficient read depth	
ENCFF002CLN	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ATF3-human	DNA		see document	see document		False	2011-07-18	ENCODE												312249	ENCODE Consortium Analysis Working Group	d1af167591078c356c4ff1f625297619		https://www.encodeproject.org/files/ENCFF002CLN/@@download/ENCFF002CLN.bed.gz	hg19			archived	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample, missing derived_from	control insufficient read depth	
ENCFF475TQE	bed narrowPeak	optimal idr thresholded peaks	ENCSR000BNU	ChIP-seq	EFO:0002067	K562	cell line	Homo sapiens				ATF3-human	DNA		see document	see document		False	2011-07-18	ENCODE				1, 2							ENCFF001TDO, ENCFF015HEH, ENCFF146YXX, ENCFF251XOI	128953	ENCODE Processing Pipeline	146c148cf8221517c340d416403eefc1		https://www.encodeproject.org/files/ENCFF475TQE/@@download/ENCFF475TQE.bed.gz	hg19			released	low read length, mild to moderate bottlenecking, low read depth, borderline replicate concordance, moderate library complexity	biological replicates with identical biosample	control insufficient read depth