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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
539
ChIP-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
2
RRBS
2
STARR-seq
1
whole genome sequencing assay
Assay category
539
DNA binding
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
326
transcription factor
108
control
102
histone modification
101
histone
81
recombinant protein
59
narrow histone mark
56
RNA binding protein
42
broad histone mark
17
chromatin remodeller
2
other context
2
other post-translational modification
Date released
305
November, 2017
63
December, 2017
54
August, 2017
51
May, 2020
50
November, 2018
26
August, 2021
20
May, 2022
6
October, 2019
3
July, 2019
2
February, 2021
2
June, 2019
2
March, 2020
1
December, 2018
Available data
506
bam
448
bigWig
447
fastq
429
bed narrowPeak
346
bigBed narrowPeak
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
2
tsv
1
bed bed3
1
hdf5
1
vcf
Organism
585
Homo sapiens
Biosample type
374
cell line
187
tissue
15
in vitro differentiated cells
9
primary cell
Organ
585
liver
413
pancreas
302
epithelium
258
brain
229
kidney
187
heart
186
connective tissue
169
vasculature
163
blood vessel
115
limb
97
bone element
87
musculature of body
83
artery
78
adipose tissue
69
blood
69
bodily fluid
42
eye
38
nerve
25
spleen
22
embryo
22
vein
18
ureter
12
skeleton
11
lung
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
585
AMP
Genome assembly (visualization)
451
hg19
364
GRCh38
Lab
543
AMP-T2D consortium
22
Bing Ren, UCSD
20
Karen Mohlke, UNC
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
missing controlled_by
Audit category:
22
inconsistent control read length
2
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
assay_slims!
Transcription
BIOSAMPLE
ASSAY
585 results
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ChIP-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
RRBS
STARR-seq
whole genome sequencing assay
cell line
HepG2
365
1
1
2
2
2
1
tissue
liver
145
20
2
3
1
1
1
right lobe of liver
10
1
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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