Deeply Profiled Cell Lines – ENCODE

All Uniform batch growth

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Cell Line (batch identifier)

	intact Hi-C	PRO-cap	in situ Hi-C	dilution Hi-C	Histone ChIP-seq	Mint-ChIP-seq	TF ChIP-seq	RIP-chip	ATAC-seq	DNase-seq	FAIRE-seq	5C	ChIA-PET	Bru-seq	BruChase-seq	BruUV-seq	CAGE	PAS-seq	PRO-seq	RAMPAGE	RNA microarray	RNA-PET	long read RNA-seq	microRNA counts	microRNA-seq	polyA minus RNA-seq	polyA plus RNA-seq	siRNA RNA-seq	small RNA-seq	total RNA-seq	DNAme array	MRE-seq	MeDIP-seq	RRBS	WGBS	Repli-chip	Repli-seq	genotyping array	snATAC-seq	WGS	MS-MS
Caco-2	1	1			5	6	2			3		1	2	2	2	1					1		1		1					1	1			1				1	1
ENCBS095ZZD	1	1								1			2	2	2	1							1		1					1
ENCBS072CVQ		1								1				2	2	1							1		1					1									1
ENCBS257JWV						6

H1					55		88	1		4	1	1	3				4	1			1	1	7	1	4	3	10		4	4	2	2	1	6	3	1		2			2
ENCBS111ENC							33			1																					2	1		1	2			1
ENCBS854AAA							18
ENCBS380OBH							15

HCT116	17	14	8		17	92	43		17	16			34	18	2	1			16		1		1	1	2		1			17	2	1		1					7
ENCBS389ENC							19																								1	1
ENCBS177ZJV	1	1				6	1		1	1			2	1					1											1
ENCBS228RKP	1	1				6	1		1	1			2	1					1											1

MCF 10A	1	1				6	15			3			2	2	2	1							1		1					1	3			2				3	1
ENCBS401NZE	1	1												2	2	1							1		1					1
ENCBS967KPZ		1												2	2	1							1		1					1									1
ENCBS067ENC							4																								1			1				1

MCF-7	1				18		159		1	8	3	1	7	2	2	1	3				7	3	1	1	2	1	5	1	7	2	2			5			6	2	3
ENCBS056AAA							19
ENCBS789UPK					13		3
ENCBS967MVZ					13		3

PC-3	1				13		3		1	1			2	2	2	1				1			1		1					2									1
ENCBS596CTT					13		3
ENCBS451OVM					12		2
ENCBS388XJL	1								1					2	2	1							1		1					1									1

Panc1	1		1		7		7		1	1			2	2	2	1					1		1		1		1			1	3			2				3	1	1
ENCBS378LMT	1								1				2	2	2	1							1		1					1									1
ENCBS425ENC							5																				1				1			1				2
ENCBS254ODH									1				2	2	2	1

mammary epithelial cell	1		2	1	27		3			4			1	2	2	1	1				2		1		3	1	3		1	2	3	1	1	1	2			3
ENCBS091ENC					12		2																								1				1
ENCBS045GHW					11		2
ENCBS956YQM	1												1	2	2	1							1		1					1