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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
413
ChIP-seq
189
total RNA-seq
23
ATAC-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
413
DNA binding
193
Transcription
24
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
267
transcription factor
108
control
89
histone modification
88
histone
82
recombinant protein
54
RNA binding protein
narrow histone mark
34
broad histone mark
17
chromatin remodeller
1
other context
1
other post-translational modification
Date released
256
November, 2017
167
May, 2020
50
November, 2018
41
August, 2017
40
May, 2022
31
August, 2021
29
December, 2017
10
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
3
February, 2021
3
March, 2020
1
December, 2018
1
February, 2020
Available data
604
bam
543
bigWig
419
fastq
363
bed narrowPeak
317
bigBed narrowPeak
174
tsv
bed broadPeak
57
bigBed broadPeak
46
tagAlign
11
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
647
Homo sapiens
Biosample type
340
cell line
287
tissue
10
in vitro differentiated cells
10
primary cell
Organ
856
pancreas
647
liver
638
connective tissue
477
adipose tissue
455
epithelium
323
heart
261
kidney
195
vasculature
193
blood vessel
159
bone element
131
artery
130
brain
71
limb
67
blood
67
bodily fluid
54
eye
42
musculature of body
33
nerve
29
embryo
22
spleen
20
lung
16
skeleton
12
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
647
AMP
Genome assembly (visualization)
489
hg19
419
GRCh38
Lab
578
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
Audit category:
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
audit.ERROR.category!
inconsistent control
files.file_type!
bed broadPeak
lab.title!
Struan F.A. Grant, CHOP
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
647 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
317
14
1
1
2
2
2
1
tissue
liver
76
167
20
3
1
1
1
1
1
right lobe of liver
8
3
1
1
2
1
in vitro differentiated cells
hepatocyte
10
primary cell
hepatocyte
2
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
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