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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
447
ChIP-seq
189
total RNA-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
447
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
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
other post-translational modification
Date released
298
November, 2017
167
May, 2020
53
November, 2018
46
December, 2017
40
May, 2022
29
August, 2021
21
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
599
bam
537
bigWig
418
fastq
358
bed narrowPeak
321
bigBed narrowPeak
174
tsv
48
bed broadPeak
48
bigBed broadPeak
28
tagAlign
10
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
686
Homo sapiens
Biosample type
381
cell line
291
tissue
11
primary cell
3
in vitro differentiated cells
Organ
795
pancreas
686
liver
606
connective tissue
459
adipose tissue
431
epithelium
324
kidney
291
heart
165
vasculature
160
blood vessel
159
bone element
121
artery
99
brain
73
limb
68
blood
68
bodily fluid
63
musculature of body
58
eye
25
embryo
20
lung
19
nerve
18
ureter
16
skeleton
16
spleen
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
686
AMP
Genome assembly (visualization)
540
hg19
459
GRCh38
Lab
618
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:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
target.investigated_as!
histone modification
other post-translational modification
BIOSAMPLE
ASSAY
686 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
358
14
1
1
2
2
2
1
tissue
liver
80
167
20
2
3
1
1
1
1
1
right lobe of liver
5
3
1
2
1
2
primary cell
hepatocyte
1
5
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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