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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
434
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
Hi-C
4
WGBS
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
434
DNA binding
193
Transcription
29
DNA accessibility
4
3D chromatin structure
4
DNA methylation
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
narrow histone mark
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
274
November, 2017
167
May, 2020
52
December, 2017
40
August, 2017
40
May, 2022
33
November, 2018
30
August, 2021
9
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
574
bam
514
bigWig
389
fastq
334
bed narrowPeak
289
bigBed narrowPeak
174
tsv
53
bed broadPeak
53
bigBed broadPeak
46
tagAlign
11
bed bed3+
3
bed bedMethyl
bigBed bedMethyl
2
bedpe bed3+
2
hic
2
tar
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
670
Homo sapiens
Biosample type
337
cell line
314
tissue
11
primary cell
8
in vitro differentiated cells
Organ
858
pancreas
670
liver
638
connective tissue
472
adipose tissue
461
epithelium
334
heart
332
kidney
203
vasculature
200
blood vessel
164
brain
159
bone element
134
artery
106
limb
79
musculature of body
58
blood
58
bodily fluid
56
eye
35
nerve
29
embryo
21
spleen
20
lung
18
ureter
16
skeleton
16
vein
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
670
AMP
Genome assembly (visualization)
516
hg19
438
GRCh38
Lab
602
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
10
missing controlled_by
Audit category:
15
inconsistent control read length
5
inconsistent control run_type
files.file_type!
bigBed bedMethyl
target.investigated_as!
RNA binding protein
narrow histone mark
BIOSAMPLE
ASSAY
670 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
WGBS
pCHi-C
small RNA-seq
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
315
14
1
2
2
2
1
tissue
liver
102
167
20
2
1
3
1
1
1
right lobe of liver
7
3
1
2
1
2
primary cell
hepatocyte
2
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
8
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