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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
471
ChIP-seq
160
total RNA-seq
6
DNase-seq
5
WGBS
3
ATAC-seq
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
1
single cell RNA-seq
Assay category
471
DNA binding
164
Transcription
9
DNA accessibility
7
DNA methylation
3
3D chromatin structure
Target of assay
294
transcription factor
91
control
83
histone modification
82
histone
82
recombinant protein
53
RNA binding protein
51
narrow histone mark
31
broad histone mark
20
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
December, 2017
54
August, 2017
53
November, 2018
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
August, 2021
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
618
bam
538
bigWig
402
fastq
357
bed narrowPeak
308
bigBed narrowPeak
165
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
657
Homo sapiens
Biosample type
370
cell line
273
tissue
14
primary cell
Organ
725
pancreas
679
connective tissue
657
liver
491
adipose tissue
353
heart
347
epithelium
286
brain
236
vasculature
230
blood vessel
163
kidney
158
bone element
141
artery
122
limb
96
musculature of body
61
blood
61
bodily fluid
61
eye
43
nerve
25
spleen
24
embryo
22
vein
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
657
AMP
Genome assembly (visualization)
540
hg19
481
GRCh38
Lab
657
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:
27
inconsistent control read length
8
inconsistent control run_type
month_released!
December, 2017
BIOSAMPLE
ASSAY
657 results
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ChIP-seq
total RNA-seq
DNase-seq
WGBS
ATAC-seq
Hi-C
pCHi-C
small RNA-seq
RRBS
single cell RNA-seq
cell line
HepG2
360
5
1
1
1
2
tissue
liver
107
147
2
3
1
1
1
1
1
right lobe of liver
3
2
1
1
2
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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