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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
492
ChIP-seq
189
total RNA-seq
22
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
whole genome sequencing assay
Assay category
492
DNA binding
192
Transcription
28
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
308
November, 2017
167
May, 2020
56
December, 2017
53
November, 2018
41
August, 2017
40
May, 2022
31
August, 2021
10
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
630
bam
570
bigWig
446
fastq
389
bed narrowPeak
344
bigBed narrowPeak
174
tsv
57
bed broadPeak
57
bigBed broadPeak
46
tagAlign
10
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
hdf5
1
vcf
Organism
728
Homo sapiens
Biosample type
390
cell line
316
tissue
12
primary cell
10
in vitro differentiated cells
Organ
841
pancreas
728
liver
443
epithelium
331
kidney
287
heart
196
connective tissue
169
brain
144
vasculature
139
blood vessel
101
limb
93
adipose tissue
83
musculature of body
69
artery
68
blood
68
bodily fluid
58
eye
35
nerve
29
embryo
23
spleen
20
lung
18
ureter
16
vein
9
bone element
8
skeleton
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
728
AMP
Genome assembly (visualization)
571
hg19
489
GRCh38
Lab
659
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
assay_title!
CRISPR genome editing followed by DNA sequencing
month_released!
February, 2021
organ_slims!
gonad
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
728 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
whole genome sequencing assay
cell line
HepG2
369
14
1
2
2
1
1
tissue
liver
103
167
20
2
3
1
1
1
1
right lobe of liver
8
3
1
2
1
2
primary cell
hepatocyte
2
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
10
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