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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
159
ChIP-seq
30
total RNA-seq
20
ATAC-seq
5
pCHi-C
4
Hi-C
4
WGBS
2
RRBS
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
159
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
histone
33
histone modification
19
narrow histone mark
14
broad histone mark
7
RNA binding protein
2
chromatin remodeller
1
recombinant protein
Date released
96
November, 2017
40
May, 2022
29
August, 2021
24
May, 2020
15
August, 2017
13
December, 2017
4
March, 2020
3
July, 2019
2
February, 2021
1
December, 2018
1
February, 2020
1
November, 2018
Available data
140
bam
120
fastq
81
bigWig
63
bed narrowPeak
32
bigBed narrowPeak
28
tagAlign
14
tsv
12
bed broadPeak
12
bigBed broadPeak
3
tar
2
bed bed3+
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
csv
1
hdf5
1
vcf
Organism
229
Homo sapiens
Biosample type
128
cell line
97
tissue
3
primary cell
1
in vitro differentiated cells
Organ
296
pancreas
227
liver
225
epithelium
149
kidney
126
heart
93
bone element
74
connective tissue
53
eye
50
brain
40
vasculature
38
blood vessel
36
adipose tissue
24
limb
23
musculature of body
20
lung
15
blood
15
bodily fluid
13
artery
12
nerve
9
spleen
8
skeleton
7
embryo
5
vein
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
229
AMP
Genome assembly (visualization)
543
hg19
GRCh38
Lab
161
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
8
missing controlled_by
Audit category:
2
inconsistent control read length
2
inconsistent control run_type
target.investigated_as!
histone
assembly!
GRCh38
BIOSAMPLE
ASSAY
229 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
WGBS
RRBS
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
112
9
2
2
2
1
tissue
liver
42
20
20
1
1
3
1
1
right lobe of liver
3
1
1
1
sigmoid colon
1
small intestine
1
primary cell
hepatocyte
1
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
1
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