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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
551
ChIP-seq
160
total RNA-seq
8
DNase-seq
5
Hi-C
5
WGBS
3
ATAC-seq
3
pCHi-C
3
small RNA-seq
2
RRBS
1
FAIRE-seq
1
single cell RNA-seq
Assay category
551
DNA binding
164
Transcription
12
DNA accessibility
7
DNA methylation
5
3D chromatin structure
Target of assay
327
transcription factor
115
histone modification
114
histone
106
control
82
recombinant protein
64
narrow histone mark
57
RNA binding protein
50
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
63
December, 2017
54
August, 2017
53
November, 2018
28
October, 2019
10
July, 2019
5
December, 2019
5
January, 2019
4
August, 2021
4
March, 2020
3
February, 2021
2
June, 2019
1
December, 2018
1
February, 2020
Available data
701
bam
603
bigWig
465
fastq
420
bed narrowPeak
371
bigBed narrowPeak
165
tsv
86
tagAlign
67
bed broadPeak
67
bigBed broadPeak
15
bed bed3+
4
tar
3
bed bedMethyl
3
bigBed bedMethyl
3
hic
2
bedpe bed3+
1
bed bed3
1
csv
1
hdf5
Organism
742
Homo sapiens
Biosample type
370
cell line
321
tissue
36
primary cell
15
in vitro differentiated cells
Organ
725
pancreas
720
liver
679
connective tissue
491
adipose tissue
366
epithelium
353
heart
286
brain
236
vasculature
230
blood vessel
163
kidney
158
bone element
141
artery
122
limb
96
musculature of body
61
blood
61
bodily fluid
61
eye
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
742
AMP
Genome assembly (visualization)
607
hg19
543
GRCh38
Lab
742
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
audit script error
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
BIOSAMPLE
ASSAY
742 results
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ChIP-seq
total RNA-seq
DNase-seq
Hi-C
WGBS
ATAC-seq
pCHi-C
small RNA-seq
RRBS
FAIRE-seq
single cell RNA-seq
cell line
HepG2
360
5
1
1
1
2
tissue
liver
145
147
2
1
3
1
1
1
1
right lobe of liver
10
3
2
1
1
2
primary cell
endothelial cell of umbilical vein
17
2
2
1
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
15
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