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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
192
ChIP-seq
20
ATAC-seq
20
total RNA-seq
4
Hi-C
4
WGBS
2
RRBS
2
STARR-seq
1
DNase-seq
1
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
192
DNA binding
21
DNA accessibility
21
Transcription
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
14
broad histone mark
7
RNA binding protein
2
chromatin remodeller
1
recombinant protein
Date released
98
November, 2017
40
May, 2022
35
August, 2017
31
May, 2020
23
August, 2021
13
December, 2017
3
July, 2019
2
February, 2021
1
December, 2018
1
March, 2020
1
November, 2018
Available data
150
bam
122
fastq
94
bigWig
74
bed narrowPeak
55
tagAlign
32
bigBed narrowPeak
14
bed broadPeak
14
bigBed broadPeak
tsv
3
tar
2
bed bed3+
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
csv
1
hdf5
1
vcf
Organism
248
Homo sapiens
Biosample type
123
cell line
121
tissue
3
primary cell
1
in vitro differentiated cells
Organ
300
pancreas
248
liver
220
epithelium
137
kidney
114
connective tissue
93
bone element
64
adipose tissue
55
brain
50
eye
40
musculature of body
35
vasculature
33
blood vessel
29
heart
23
limb
19
lung
15
blood
15
bodily fluid
11
nerve
10
vein
9
artery
8
embryo
8
skeleton
8
spleen
4
gonad
4
ovary
1
bone marrow
1
lymph node
1
pericardium
1
pituitary gland
1
skin of body
1
thymus
Project
248
AMP
Genome assembly (visualization)
463
hg19
GRCh38
Lab
186
AMP-T2D consortium
40
Karen Mohlke, UNC
22
Bing Ren, UCSD
Audit category:
8
missing controlled_by
Audit category:
4
inconsistent control read length
2
inconsistent control run_type
files.file_type!
tsv
assembly!
GRCh38
BIOSAMPLE
ASSAY
248 results
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ChIP-seq
ATAC-seq
total RNA-seq
Hi-C
WGBS
RRBS
STARR-seq
DNase-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
117
2
2
1
1
tissue
liver
70
20
20
1
3
1
1
right lobe of liver
3
1
1
primary cell
hepatocyte
1
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
1
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