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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
150
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
150
DNA binding
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
97
transcription factor
88
histone modification
histone
53
narrow histone mark
52
control
34
broad histone mark
24
RNA binding protein
16
recombinant protein
8
chromatin remodeller
Date released
November, 2017
167
May, 2020
53
November, 2018
46
December, 2017
40
May, 2022
29
August, 2021
22
August, 2017
10
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
2
October, 2019
1
December, 2018
1
February, 2020
Available data
303
bam
287
bigWig
174
tsv
125
bed narrowPeak
121
fastq
87
bigBed narrowPeak
27
tagAlign
10
bed bed3+
5
bed broadPeak
5
bigBed broadPeak
3
bed bedMethyl
3
bigBed bedMethyl
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
389
Homo sapiens
Biosample type
292
tissue
83
cell line
11
primary cell
3
in vitro differentiated cells
Organ
795
pancreas
606
connective tissue
459
adipose tissue
427
epithelium
389
liver
324
kidney
291
heart
161
vasculature
159
bone element
158
blood vessel
121
artery
81
brain
73
limb
68
blood
68
bodily fluid
63
musculature of body
58
eye
25
embryo
20
lung
19
nerve
19
spleen
18
ureter
16
skeleton
7
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
389
AMP
Genome assembly (visualization)
292
hg19
258
GRCh38
Lab
321
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
3
missing controlled_by
Audit category:
5
inconsistent control read length
4
inconsistent control run_type
month_released!
November, 2017
target.investigated_as!
histone
BIOSAMPLE
ASSAY
389 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
81
20
2
3
1
1
1
1
1
right lobe of liver
3
5
1
2
1
2
cell line
HepG2
14
60
1
1
2
2
2
1
primary cell
hepatocyte
5
1
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
3
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