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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
511
ChIP-seq
160
total RNA-seq
6
DNase-seq
5
WGBS
3
ATAC-seq
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
1
single cell RNA-seq
Assay category
511
DNA binding
164
Transcription
9
DNA accessibility
7
DNA methylation
3
3D chromatin structure
Target of assay
327
transcription factor
104
control
100
histone modification
99
histone
82
recombinant protein
58
narrow histone mark
57
RNA binding protein
41
broad histone mark
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
194
May, 2020
60
December, 2017
54
August, 2017
48
November, 2018
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
August, 2021
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
658
bam
565
bigWig
442
fastq
384
bed narrowPeak
335
bigBed narrowPeak
165
tsv
86
tagAlign
59
bed broadPeak
59
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
697
Homo sapiens
Biosample type
350
cell line
319
tissue
14
in vitro differentiated cells
14
primary cell
Organ
725
pancreas
697
liver
677
connective tissue
491
adipose tissue
365
epithelium
353
heart
286
brain
236
vasculature
230
blood vessel
163
kidney
158
bone element
141
artery
122
limb
96
musculature of body
61
eye
51
blood
51
bodily fluid
43
nerve
37
embryo
25
spleen
22
vein
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
697
AMP
Genome assembly (visualization)
567
hg19
510
GRCh38
Lab
697
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
25
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
16
inconsistent control read length
target.investigated_as!
chromatin remodeller
BIOSAMPLE
ASSAY
697 results
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ChIP-seq
total RNA-seq
DNase-seq
WGBS
ATAC-seq
Hi-C
pCHi-C
small RNA-seq
RRBS
single cell RNA-seq
cell line
HepG2
340
5
1
1
1
2
tissue
liver
143
147
2
3
1
1
1
1
1
right lobe of liver
10
3
2
1
1
2
in vitro differentiated cells
hepatocyte
14
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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