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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
178
ChIP-seq
30
total RNA-seq
20
ATAC-seq
4
Hi-C
4
WGBS
4
pCHi-C
2
RRBS
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
178
DNA binding
31
Transcription
21
DNA accessibility
6
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
107
control
52
transcription factor
33
histone
33
histone modification
19
narrow histone mark
broad histone mark
7
RNA binding protein
2
chromatin remodeller
1
recombinant protein
Date released
97
November, 2017
40
May, 2022
32
May, 2020
31
August, 2021
23
August, 2017
13
December, 2017
3
July, 2019
3
March, 2020
2
February, 2021
1
December, 2018
1
February, 2020
1
November, 2018
Available data
149
bam
121
fastq
92
bigWig
73
bed narrowPeak
43
tagAlign
32
bigBed narrowPeak
13
bed broadPeak
13
bigBed broadPeak
13
tsv
3
tar
2
bed bed3+
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
csv
1
hdf5
1
vcf
Organism
247
Homo sapiens
Biosample type
131
cell line
112
tissue
3
primary cell
1
in vitro differentiated cells
Organ
302
pancreas
246
liver
226
epithelium
149
kidney
127
heart
93
bone element
90
connective tissue
60
brain
55
eye
47
adipose tissue
41
vasculature
39
blood vessel
31
musculature of body
26
limb
20
lung
15
blood
15
bodily fluid
13
artery
12
nerve
9
spleen
8
embryo
8
skeleton
6
vein
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
247
AMP
Genome assembly (visualization)
595
hg19
GRCh38
Lab
177
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
Audit category:
8
missing controlled_by
Audit category:
3
inconsistent control read length
2
inconsistent control run_type
assembly!
GRCh38
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
247 results
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ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
WGBS
pCHi-C
RRBS
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
115
9
2
2
2
1
tissue
liver
58
20
20
1
3
1
1
1
right lobe of liver
3
1
1
1
bladder (urinary bladder)
1
primary cell
hepatocyte
1
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
1
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