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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
441
ChIP-seq
189
total RNA-seq
22
ATAC-seq
5
DNase-seq
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
WGBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
441
DNA binding
193
Transcription
27
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
301
transcription factor
84
control
82
recombinant protein
54
RNA binding protein
53
histone
53
histone modification
40
narrow histone mark
20
chromatin remodeller
13
broad histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
December, 2017
August, 2017
52
November, 2018
40
May, 2022
35
August, 2021
9
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
bam
554
bigWig
374
fastq
373
bed narrowPeak
302
bigBed narrowPeak
174
tsv
66
tagAlign
63
bed broadPeak
63
bigBed broadPeak
10
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
672
Homo sapiens
Biosample type
400
cell line
259
tissue
13
primary cell
Organ
751
pancreas
672
liver
558
connective tissue
470
epithelium
434
adipose tissue
385
heart
350
kidney
284
brain
234
vasculature
229
blood vessel
159
bone element
141
artery
121
limb
69
blood
69
bodily fluid
68
musculature of body
60
eye
43
nerve
24
embryo
23
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
672
AMP
Genome assembly (visualization)
554
hg19
461
GRCh38
Lab
601
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
files.file_type!
bedpe
bigBed bedMethyl
month_released!
August, 2017
December, 2017
BIOSAMPLE
ASSAY
672 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
pCHi-C
small RNA-seq
STARR-seq
WGBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
tissue
liver
59
167
20
2
1
1
1
1
right lobe of liver
3
1
2
1
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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