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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
476
ChIP-seq
160
total RNA-seq
6
DNase-seq
6
pCHi-C
5
WGBS
3
ATAC-seq
3
Hi-C
3
small RNA-seq
2
RRBS
1
single cell RNA-seq
Assay category
476
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
narrow histone mark
57
RNA binding protein
41
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
308
November, 2017
167
May, 2020
56
December, 2017
53
November, 2018
41
August, 2017
10
July, 2019
6
March, 2020
5
December, 2019
5
January, 2019
5
October, 2019
3
February, 2021
2
August, 2021
2
June, 2019
1
December, 2018
1
February, 2020
Available data
631
bam
538
bigWig
446
fastq
358
bed narrowPeak
344
bigBed narrowPeak
168
tsv
57
bed broadPeak
57
bigBed broadPeak
46
tagAlign
11
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
665
Homo sapiens
Biosample type
363
cell line
280
tissue
12
primary cell
10
in vitro differentiated cells
Organ
662
liver
652
pancreas
646
connective tissue
479
adipose tissue
328
heart
317
epithelium
210
vasculature
205
blood vessel
169
brain
158
bone element
148
kidney
135
artery
107
limb
83
musculature of body
60
blood
60
bodily fluid
58
eye
35
nerve
29
embryo
23
spleen
18
ureter
16
skeleton
16
vein
2
intestine
2
pericardium
1
adrenal gland
1
esophagus
1
gonad
1
large intestine
1
lung
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
665
AMP
Genome assembly (visualization)
540
hg19
490
GRCh38
Lab
665
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
1
Kyle Gaulton, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
665 results
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ChIP-seq
total RNA-seq
DNase-seq
pCHi-C
WGBS
ATAC-seq
Hi-C
small RNA-seq
RRBS
single cell RNA-seq
cell line
HepG2
353
5
2
1
1
1
tissue
liver
103
147
2
1
3
1
1
1
1
right lobe of liver
8
3
2
1
1
2
sigmoid colon
1
small intestine
1
thymus
1
primary cell
hepatocyte
2
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
10
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