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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
23
ATAC-seq
10
single cell RNA-seq
10
snATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
4
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
whole genome sequencing assay
Assay category
492
DNA binding
202
Transcription
39
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
19
April, 2020
10
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
4
March, 2020
3
February, 2021
2
June, 2019
1
December, 2018
1
February, 2020
Available data
631
bam
570
bigWig
446
fastq
390
bed narrowPeak
344
bigBed narrowPeak
175
tsv
57
bed broadPeak
57
bigBed broadPeak
46
tagAlign
11
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
750
Homo sapiens
Biosample type
392
cell line
337
tissue
12
primary cell
10
in vitro differentiated cells
Organ
873
pancreas
731
liver
651
connective tissue
479
adipose tissue
475
epithelium
339
kidney
328
heart
210
vasculature
205
blood vessel
169
brain
159
bone element
135
artery
107
limb
83
musculature of body
68
blood
68
bodily fluid
58
eye
35
nerve
29
embryo
23
spleen
20
lung
18
ureter
16
skeleton
16
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
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
732
AMP
19
LungMap
Genome assembly (visualization)
573
hg19
490
GRCh38
Lab
663
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
19
Xin Sun, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
751 results
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ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
whole genome sequencing assay
cell line
HepG2
369
14
1
1
2
2
2
1
tissue
liver
103
167
20
1
2
3
1
1
1
1
lung
9
10
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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