Clear Filters

Annotation type

3014target gene predictions
2638pQTL
1707candidate regulatory elements
1248accessible chromatin
977histone modifications
943chromatin state
binding sites
685gene expression
484differential activity
180eQTL
141variant allelic effects
74Fine-mapped variants
25caQTL
7sQTL
5hQTL
4variant to gene
3meQTL
3other
1representative DNase hypersensitivity sites

Annotation Category

4876cis-regulatory elements
3078Genetic variant effects
3014Target gene links
1169Gene expression levels
2Others

Annotation type Category

4516DNase-seq
4427ChIP-seq
2638quantitative proteomics
546RNA-seq
514ATAC-seq
460snATAC-seq
305single cell RNA-seq
189HiC
147scRNA-seq
138H3K27ac ChIP-Seq
84snDropSeq
47pCHi-C
25snRNA-seq
17Expression arrays
5Capture-C
4RNA microarray
3DNA methylation profiling by array assay
1SNP-SELEX

Available data

7245bed bed3+
3551tsv
868bed bed9
546bigWig
112txt
40bigBed bed9
34bed bed9+
26csv
16bigBed narrowPeak
12bed bed3
12bed narrowPeak
4bam
3bed gappedPeak
3xls

File set status

12137released
1archived
1revoked

Genome assembly (visualization)

6181hg19
3896GRCh38
3hg18

Organism

12091Homo sapiens

Biosample type

5915tissue
3833primary cell
1909cell line
476in vitro differentiated cells
4stem cell

Biosample term

2636whole blood
134monocyte
109heart
107stomach
94kidney
91fibroblast
89endothelial cell
88brain
86head of caudate nucleus
84muscle of arm
82lung
81placenta
77adrenal gland
76small intestine
74A549
73CD8-positive, alpha-beta T cell
73macrophage
71muscle of leg
70large intestine
70smooth muscle cell
69muscle of back
68T-cell
67HeLa-S3
67left lung
66B cell
66common myeloid progenitor, CD34-positive
64CD4-positive, alpha-beta T cell
59dorsolateral prefrontal cortex
56right lung
56thymus
55stimulated activated CD4-positive, alpha-beta T cell
54hematopoietic multipotent progenitor cell
52H1-hESC
52right kidney
51hepatocyte
51natural killer cell
51renal cortex interstitium
50renal pelvis
49liver
48neural progenitor cell
48posterior cingulate gyrus
46K562
45T cell
45adipocyte
45left kidney
44heart left ventricle
43islet of Langerhans
42retina
39CD14-positive monocyte
39spinal cord
38spleen
37CD4-positive, alpha-beta memory T cell
35cardiac muscle cell
34pericyte
33activated CD4-positive, alpha-beta T cell
32T-helper 1 cell
32glutamatergic neuron
31astrocyte
30MCF-7
30adipose tissue
29heart right ventricle
29naive thymus-derived CD4-positive, alpha-beta T cell
29ovary
29pancreas
28T-helper 17 cell
28body of pancreas
28keratinocyte
28tibial nerve
28trophoblast cell
27pancreatic ductal cell
27regulatory T cell
26CD8-positive, alpha-beta memory T cell
26T-helper 2 cell
26neuron
26sigmoid colon
25epithelial cell of proximal tubule
25psoas muscle
25stimulated activated CD8-positive, alpha-beta memory T cell
24dendritic cell
24endothelial cell of lymphatic vessel
24gastrocnemius medialis
24pericyte cell
23H9
23caudate nucleus
23foreskin keratinocyte
22EndoC_BH1
22GABAergic neuron
22HCT116
22glomerular endothelial cell
22naive thymus-derived CD8-positive, alpha-beta T cell
22thyroid gland
22upper lobe of left lung
21coronary artery
21right atrium auricular region
21tibial artery
20endothelial cell of umbilical vein
20subcutaneous adipose tissue
20testis
20transverse colon
19HFFc6
19endocardial cell
19foreskin fibroblast
19mesenchymal stem cell
19mononuclear cell
19omental fat pad
18ascending aorta
18hepatic stellate cell
18muscle of trunk
18pancreatic beta cell
18pigmented layer of retina
17Peyer's patch
17frontal cortex
17mast cell
17pancreatic acinar cell
16HepG2
16cerebellum
16chorionic villus
16induced pluripotent stem cell
16left renal cortex interstitium
16left renal pelvis
16skeletal muscle satellite cell
16substantia nigra
15activated T-cell
15erythroblast
15fibroblast of cardiac tissue
15layer of hippocampus
15osteoblast
15pancreatic alpha cell
15pancreatic delta cell
15putamen
14GM12878
14activated CD8-positive, alpha-beta memory T cell
14aorta
14embryonic stem cell
14endocrine pancreas
14fibroblast of lung
14retinal pigment epithelial cell
14right renal pelvis
14skeletal muscle myoblast
14skeletal muscle tissue
13breast epithelium
13bronchial epithelial cell
13dermis blood vessel endothelial cell
13excitatory neuron
13glomerular visceral epithelial cell
13left cardiac atrium
13mammary gland epithelial cell
13naive B cell
13neutrophil
12Ammon's horn
12SK-N-DZ
12colonic mucosa
12fibroblast of dermis
12mammary epithelial cell
12right renal cortex interstitium
11breast cancer cell
11epithelial cell of prostate
11esophagus muscularis mucosa
11kidney tubule cell
11neurosphere
11prostate gland
11temporal lobe
11thoracic aorta
11tongue
10esophagus squamous epithelium
10inflammatory macrophage
10limb
10lymphoblastoid cell line
10lymphocyte
10mesothelial cell
10progenitor cell of endocrine pancreas
10right lobe of liver
10thyroid follicular cell
9IMR-90
9SK-N-SH
9WI38
9cardiomyocytes
9choroid plexus epithelial cell
9endodermal cell
9endothelial cell of hepatic sinusoid
9esophagus
9eye
9globus pallidus
9lower leg skin
9megakaryocyte
9memory B cell
9neuronal stem cell
9oligodendrocyte
9progenitor cell
8B Cell
8HAP-1
8LNCaP clone FGC
8MM.1S
8PC-9
8Rhabdomyosarcoma
8T47D
8cingulate gyrus
8colon epithelial cell
8duodenal mucosa
8epithelial cell of esophagus

Organ

3320blood
2881vasculature
2845blood vessel
2807bodily fluid
2656vein
909epithelium
887brain
749kidney
487connective tissue
483heart
431lung
374musculature of body
352intestine
314pancreas
278skin of body
242limb
227liver
220large intestine
202embryo
171extraembryonic component
155eye
140adipose tissue
140stomach
111muscle organ
102adrenal gland
97small intestine
96bone element
94placenta
92mammary gland
92thymus
89uterus
82artery
79prostate gland
73ureter
62spleen
61gonad
60__MARKER__
57penis
50lymph node
48esophagus
47spinal cord
47thyroid gland
32ovary
28testis
25nerve
24lymphoid tissue
24skeleton
21mouth
19lymphatic vessel
15breast
14bronchus
13pituitary gland
13urinary bladder
12tongue
12vagina
11bone marrow
4nose
3trachea
1embryonic structure
1gallbladder
1pericardium

Life stage

5064adult
1386embryonic
468unknown
458fetal
112child
75newborn
31young adult
30postnatal

Date released

2636February, 2025
2508September, 2022
1982July, 2026
1871February, 2021
388May, 2021
367February, 2024
333November, 2021
320May, 2026
289June, 2020
286September, 2023
155May, 2020
127August, 2021
127March, 2020
106January, 2022
89January, 2020
70March, 2023
64February, 2020
56January, 2021
49May, 2022
44November, 2022
40May, 2024
35August, 2017
33July, 2025
32February, 2023
30March, 2024
19April, 2020
14November, 2019
14October, 2019
10October, 2022
9August, 2018
9May, 2019
8April, 2019
4March, 2026
3November, 2020
3September, 2018
2January, 2018
2January, 2025
1August, 2020
1August, 2022
1July, 2020
1June, 2021

Software used

2384r
1834macs
943chromhmm
837encode-ccres
249abc
139qTLtools
136deltasvm
117deseq2
36cicero
27chicago
27nospecificsoft_customcode
25seurat
24gtex_eqtl:V8
24gtex_finemapping_eQTL:caveman
24gtex_finemapping_eQTL:caviar
24gtex_finemapping_eQTL:dapg
18samtools
15limix
14hiccups
14matrix-eQTL
12deeptools
12umitools
11rasqual
9salmon
8fastqtl
6eigenmt
5peer
5unknown
3mach2qtl
3minfi
3sqtlseeker
2combined S2G strategy
2emmax
2mpraflow
1altius-index
1bedops
1betacells_cytokines_t1d
1bimbam
1epacts
1fast-lmm
1haploview
1pepatac
1probabel
1snap

Encyclopedia version

1Adipocyte.narrowpeak.bed.gz Adipocyte.consensus_summit_features.bed.gz
1Endothelial.narrowpeak.bed.gz Endothelial.consensus_summit_features.bed.gz
1FAP.narrowpeak.bed.gz Mesenchymal_Stem_Cell.consensus_summit_features.bed.gz
1Macrophage.narrowpeak.bed.gz Macrophage.consensus_summit_features.bed.gz
1Neuromuscular_junction.narrowpeak.bed.gz Neuromuscular_junction.consensus_summit_features.bed.gz
1Neuronal.narrowpeak.bed.gz Neuronal.consensus_summit_features.bed.gz
1Satellite_Cell.narrowpeak.bed.gz Satellite_Cell.consensus_summit_features.bed.gz
1Smooth_Muscle.narrowpeak.bed.gz Smooth_Muscle.consensus_summit_features.bed.gz
1T_cell.narrowpeak.bed.gz T_cell.consensus_summit_features.bed.gz
1Type_1.narrowpeak.bed.gz Type_1.consensus_summit_features.bed.gz
1Type_2a.narrowpeak.bed.gz Type_2a.consensus_summit_features.bed.gz
1Type_2x.narrowpeak.bed.gz Type_2x.consensus_summit_features.bed.gz

Lab

10596AMP-T2D consortium
501Kyle Gaulton, UCSD
393Bing Ren, UCSD
281KPMP
138Jesse Engreitz, Stanford University
98Stephen Parker, UMich
53Katalin Susztak, Upenn
19Xin Sun, UCSD
18Ines Cebola, Imperial College London
9Anna Gloyn, Oxford
8Struan F.A. Grant, CHOP
5ITG
5Patrick T. Ellinor, Broad
4Doug Phanstiel, UNC
4Joseph Wu, Stanford
4Karen Mohlke, UNC
3Stephen S. Rich Lab @UVA

Project

11424AMP
333ENCODE
281KPMP
60T1D
19LungMap
17community
5ITG

Collection Tags

2635UK_Biobank
2496EpiMap
1456ENCODE-rE2G
1130ChIP-Atlas
874ENCODE
638DGA
533AMP
421T1D
406T2DKP
393HDMA
320pyxis
281KPMP
219BLUEPRINT
1744DN
173 T2DKP
151GTEx
133CATlas
111T2D
101eQTLCatalogue
100CMDGA
67HPAP
26FNIH_projects-heart
12FNIH_projects-liver
12ROADMAP

RFA

11234AMP
333ENCODE3