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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
189
total RNA-seq
106
ChIP-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
193
Transcription
106
DNA binding
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
transcription factor
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
171
May, 2020
40
May, 2022
39
August, 2017
19
August, 2021
18
November, 2017
17
December, 2017
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
November, 2018
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
276
bigWig
254
bam
174
tsv
112
bed narrowPeak
61
fastq
58
tagAlign
44
bigBed narrowPeak
19
bed broadPeak
19
bigBed broadPeak
10
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
345
Homo sapiens
Biosample type
276
tissue
44
cell line
13
primary cell
12
in vitro differentiated cells
Organ
874
pancreas
609
connective tissue
485
epithelium
450
adipose tissue
345
liver
332
kidney
321
heart
252
brain
205
vasculature
201
blood vessel
159
bone element
127
artery
105
limb
90
musculature of body
59
eye
32
nerve
27
embryo
20
lung
20
vein
18
ureter
16
skeleton
12
blood
12
bodily fluid
11
spleen
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
345
AMP
Genome assembly (visualization)
282
hg19
244
GRCh38
Lab
289
AMP-T2D consortium
40
Karen Mohlke, UNC
16
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
12
inconsistent control read length
target.investigated_as!
transcription factor
control
BIOSAMPLE
ASSAY
345 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
65
20
2
3
1
1
1
1
1
right lobe of liver
3
5
1
2
1
2
cell line
HepG2
14
21
1
1
2
2
2
1
primary cell
hepatocyte
5
3
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
12
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