Matrix – ENCODE

Filter the annotations included in the matrix:

Type

Biosample

	footprints	candidate Cis-Regulatory Elements	pseudobulk	gkm-SVM-model	chromatin state	element gene regulatory interaction predictions	PWMs	fine-mapped variants	cell type annotation	physical modeling	eQTLs	ChromBPNet-model	genotyping	cross-species functional conservation	regulatory elements signal matrix	overlap	other	transcript expression	gene expression	caQTLs	validated enhancers	ChromBPNet-bias-model	representative DNase hypersensitivity sites	BPNet-model	exclusion list	consensus DNase hypersensitivity sites	transcription start sites	binding sites	element gene regulatory interactions	in vivo enhancer evaluations
tissue	173175	3445	5708	1214	971	688			114	35	47	34				1	7			2	3	1
adrenal gland	4075	77	818	38	22	15			5	1	1						2
gastrocnemius medialis	4647	20		16	12	6				1	1
right lobe of liver	4662	15		12	7	5				1	1
upper lobe of left lung	4071	16		24	10	7					1
stomach	3495	118	18	41	38	22			4	1	1

cell line	168136	945		2889	333	228				12	2	9				14				3	4	7		5					1	1
K562	4665	19		697	13	10				1		2				1						2		1					1	1
MCF-7	4654	23		155	8	8				1
A549	2321	14		251	22	15
HepG2	1743	8		648	8	3				1		2				1						2
HeLa-S3	2312	16		71	7	4										2

primary cell	138755	1564		546	413	575				9						2				2				1
CD14-positive monocyte	4060	40		8	14	8				1
B cell	4059	35		10	10	7				1
T-helper 17 cell	4058	14		7	4	7
T-helper 2 cell	4042	19		7	4	9
CD4-positive naive resting alpha-beta T cell	4062	6		5

in vitro differentiated cells	18566	239		112	86	45														2
dendritic cell	2333			29
cardiac muscle cell	1159	8		3	2	2
mesothelial cell of epicardium	1152	1		2	1	2
hematopoietic multipotent progenitor cell	583	36		12	10	12
endodermal cell	585	12		2	8	2

organoid	1158	13		6	8	3
brain	1158	7		3	5	2
nephron		6		3	3
intestinal epithelium						1

Annotation Matrix