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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
154
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
154
DNA binding
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
167
May, 2020
67
November, 2017
40
May, 2022
37
August, 2017
23
December, 2017
20
August, 2021
10
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
4
November, 2018
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
305
bam
237
bigWig
174
tsv
119
fastq
61
bed narrowPeak
46
tagAlign
30
bigBed narrowPeak
13
bed broadPeak
13
bigBed broadPeak
9
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
393
Homo sapiens
Biosample type
278
tissue
95
cell line
12
primary cell
8
in vitro differentiated cells
Organ
854
pancreas
611
connective tissue
466
epithelium
462
adipose tissue
393
liver
329
kidney
316
heart
201
vasculature
197
blood vessel
166
brain
159
bone element
130
artery
107
limb
83
musculature of body
57
eye
35
nerve
26
embryo
20
lung
18
ureter
17
blood
17
bodily fluid
17
spleen
16
skeleton
16
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
393
AMP
Genome assembly (visualization)
244
hg19
204
GRCh38
Lab
335
AMP-T2D consortium
40
Karen Mohlke, UNC
18
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
6
inconsistent control read length
target.investigated_as!
transcription factor
narrow histone mark
BIOSAMPLE
ASSAY
393 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
66
20
2
3
1
1
1
1
1
right lobe of liver
3
6
1
2
1
2
cell line
HepG2
14
72
1
1
2
2
2
1
primary cell
hepatocyte
5
2
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
8
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