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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
427
ChIP-seq
180
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
1
single cell RNA-seq
Assay category
427
DNA binding
184
Transcription
29
DNA accessibility
7
DNA methylation
3
3D chromatin structure
Target of assay
327
transcription factor
control
97
histone modification
96
histone
82
recombinant protein
57
RNA binding protein
56
narrow histone mark
40
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
259
November, 2017
171
May, 2020
53
November, 2018
50
December, 2017
43
August, 2017
40
May, 2022
August, 2021
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
592
bigWig
577
bam
424
bed narrowPeak
388
fastq
358
bigBed narrowPeak
165
tsv
63
bed broadPeak
63
bigBed broadPeak
55
tagAlign
9
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
653
Homo sapiens
Biosample type
315
tissue
314
cell line
14
in vitro differentiated cells
10
primary cell
Organ
889
pancreas
653
liver
644
connective tissue
489
epithelium
466
adipose tissue
281
heart
255
brain
208
vasculature
203
blood vessel
198
kidney
159
bone element
130
artery
105
limb
90
musculature of body
63
blood
63
bodily fluid
60
eye
32
nerve
22
embryo
20
lung
20
vein
18
ureter
17
spleen
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
653
AMP
Genome assembly (visualization)
593
hg19
527
GRCh38
Lab
613
AMP-T2D consortium
40
Karen Mohlke, UNC
Audit category:
27
inconsistent control
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
target.investigated_as!
control
lab.title!
Katalin Susztak, Upenn
month_released!
August, 2021
BIOSAMPLE
ASSAY
653 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
tissue
liver
102
167
20
2
3
1
1
1
1
1
right lobe of liver
7
3
1
2
1
2
cell line
HepG2
304
5
1
1
1
2
in vitro differentiated cells
hepatocyte
14
primary cell
hepatocyte
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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