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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
395
ChIP-seq
189
total RNA-seq
23
ATAC-seq
4
Hi-C
4
WGBS
3
DNase-seq
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
395
DNA binding
193
Transcription
26
DNA accessibility
6
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
289
transcription factor
control
103
histone modification
102
histone
66
recombinant protein
60
narrow histone mark
42
broad histone mark
39
RNA binding protein
18
chromatin remodeller
2
other context
2
other post-translational modification
Date released
259
November, 2017
171
May, 2020
November, 2018
50
December, 2017
43
August, 2017
40
May, 2022
30
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
557
bigWig
527
bam
390
bed narrowPeak
335
fastq
307
bigBed narrowPeak
174
tsv
60
bed broadPeak
60
bigBed broadPeak
58
tagAlign
9
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
630
Homo sapiens
Biosample type
308
tissue
295
cell line
14
in vitro differentiated cells
13
primary cell
Organ
886
pancreas
648
connective tissue
630
liver
494
epithelium
466
adipose tissue
373
heart
253
brain
214
vasculature
209
blood vessel
200
kidney
159
bone element
132
artery
105
limb
90
musculature of body
60
eye
51
blood
51
bodily fluid
32
nerve
30
embryo
20
lung
20
vein
18
ureter
16
skeleton
11
spleen
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
630
AMP
Genome assembly (visualization)
562
hg19
478
GRCh38
Lab
563
AMP-T2D consortium
40
Karen Mohlke, UNC
27
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
10
missing controlled_by
Audit category:
22
inconsistent control read length
4
inconsistent control run_type
target.investigated_as!
control
lab.title!
Katalin Susztak, Upenn
month_released!
November, 2018
BIOSAMPLE
ASSAY
630 results
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ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
WGBS
DNase-seq
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
98
167
20
1
3
1
1
1
1
right lobe of liver
7
3
1
1
1
2
cell line
HepG2
273
14
1
2
2
2
1
in vitro differentiated cells
hepatocyte
14
primary cell
hepatocyte
3
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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