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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
494
ChIP-seq
184
total RNA-seq
23
ATAC-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
494
DNA binding
188
Transcription
23
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
294
transcription factor
108
control
89
histone modification
88
histone
82
recombinant protein
54
RNA binding protein
54
narrow histone mark
34
broad histone mark
19
chromatin remodeller
1
other context
1
other post-translational modification
Date released
257
November, 2017
194
May, 2020
63
December, 2017
53
August, 2017
50
November, 2018
40
May, 2022
35
August, 2021
10
July, 2019
7
October, 2019
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
1
December, 2018
1
February, 2020
Available data
671
bam
612
bigWig
462
fastq
436
bed narrowPeak
353
bigBed narrowPeak
169
tsv
86
tagAlign
bed broadPeak
58
bigBed broadPeak
8
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
722
Homo sapiens
Biosample type
357
tissue
343
cell line
15
in vitro differentiated cells
7
primary cell
Organ
924
pancreas
722
liver
674
connective tissue
493
epithelium
488
adipose tissue
363
heart
270
kidney
239
brain
219
vasculature
217
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
57
eye
50
musculature of body
41
nerve
37
embryo
24
spleen
20
lung
18
vein
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
722
AMP
Genome assembly (visualization)
557
hg19
477
GRCh38
Lab
651
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
14
inconsistent control read length
8
inconsistent control run_type
files.file_type!
bed broadPeak
month_released!
December, 2019
assay_title!
DNase-seq
BIOSAMPLE
ASSAY
722 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
145
167
20
3
1
1
1
1
1
right lobe of liver
10
3
1
1
2
cell line
HepG2
320
14
1
1
2
2
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
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