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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
445
ChIP-seq
185
total RNA-seq
24
ATAC-seq
8
DNase-seq
5
WGBS
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
1
single cell RNA-seq
Assay category
445
DNA binding
189
Transcription
32
DNA accessibility
7
DNA methylation
3
3D chromatin structure
Target of assay
327
transcription factor
histone modification
123
histone
115
control
82
recombinant protein
66
narrow histone mark
57
RNA binding protein
57
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
167
May, 2020
53
November, 2018
46
December, 2017
40
May, 2022
21
August, 2017
20
October, 2019
10
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
February, 2020
2
June, 2019
1
August, 2021
1
December, 2018
Available data
619
bam
535
bigWig
420
fastq
352
bed narrowPeak
325
bigBed narrowPeak
170
tsv
51
bed broadPeak
51
bigBed broadPeak
28
tagAlign
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
679
Homo sapiens
Biosample type
355
cell line
310
tissue
11
primary cell
3
in vitro differentiated cells
Organ
786
pancreas
660
liver
606
connective tissue
459
adipose tissue
428
epithelium
322
kidney
296
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
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
679
AMP
Genome assembly (visualization)
537
hg19
468
GRCh38
Lab
639
AMP-T2D consortium
40
Karen Mohlke, UNC
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
lab.title!
Bing Ren, UCSD
target.investigated_as!
histone modification
nucleotide modification
BIOSAMPLE
ASSAY
679 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
single cell RNA-seq
cell line
HepG2
345
5
1
1
1
2
tissue
liver
80
167
20
2
3
1
1
1
1
1
tibial nerve
11
5
1
2
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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