Matrix – ENCODE

Filter the annotations included in the matrix:

Type

Biosample

	footprints	imputation	candidate Cis-Regulatory Elements	pseudobulk	gkm-SVM-model	PWMs	element gene regulatory interaction predictions	chromatin state	fine-mapped variants	cell type annotation	enhancer predictions	eQTLs	physical modeling	genotyping	ChromBPNet-model	binding sites	cross-species functional conservation	other	regulatory elements signal matrix	overlap	gene expression	transcript expression	representative DNase hypersensitivity sites	validated enhancers	caQTLs	BPNet-model	exclusion list	curated SNVs	consensus DNase hypersensitivity sites	transcription start sites	ChromBPNet-bias-model	in vivo enhancer evaluations
tissue	175649	28105	3726	5708	1228		1016	1161		114	4	53	34		30	1		7		1				3	2						1
adrenal gland	4082	881	81	818	39		21	23		5		1	1					2
gastrocnemius medialis	4655	408	20		17		7	12				1	1
right lobe of liver	4670	102	15		13		7	7				1	1
stomach	3501	1013	133	18	41		31	48		4		1	1
upper lobe of left lung	4078	388	16		24		9	10				1

cell line	189744	12205	1109		2887		407	358				9	12		9	25				14				4	3	5		2				1
K562	5735	487	25		711		10	14					1		2	15				1						1						1
MCF-7	6140	338	28		155		8	8					1			1
HeLa-S3	4143	437	22		71		5	8												2
A549	3068	787	18		251		9	24
HepG2	2487	318	14		648		5	9					1		2					1

primary cell	148470	11687	1781		496		774	459				3	9			6				2					2	1
B cell	4721	557	42		9		9	12					1
CD14-positive monocyte	4067	335	45		8		13	16					1
T-helper 17 cell	4065	184	15		4		11	4
T-helper 2 cell	4049	51	22		7		14	4
CD4-positive naive resting alpha-beta T cell	4069	24	6		5

in vitro differentiated cells	18598	2559	270		103		101	99																	2
dendritic cell	2337				30
cardiac muscle cell	1161	18	8		3		4	2
mesothelial cell of epicardium	1154		1		2		3	1
mesenchymal stem cell	585	306	15		1		4	10
hematopoietic multipotent progenitor cell	584	254	38		12		17	10

organoid	1160		13		6		2	8
brain	1160		7		3		1	5
nephron			6		3			3
intestinal epithelium							1

Annotation Matrix