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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
547
ChIP-seq
22
ATAC-seq
20
total RNA-seq
6
DNase-seq
5
WGBS
2
Hi-C
2
RRBS
2
STARR-seq
1
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
547
DNA binding
28
DNA accessibility
21
Transcription
7
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
98
histone modification
97
histone
82
recombinant protein
58
RNA binding protein
58
narrow histone mark
39
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
63
December, 2017
54
August, 2017
53
November, 2018
50
May, 2020
40
May, 2022
25
August, 2021
October, 2019
3
February, 2021
3
July, 2019
2
June, 2019
1
December, 2018
Available data
674
bam
616
bigWig
465
fastq
435
bed narrowPeak
358
bigBed narrowPeak
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
609
Homo sapiens
Biosample type
385
cell line
201
tissue
15
in vitro differentiated cells
8
primary cell
Organ
609
liver
424
pancreas
305
kidney
251
epithelium
217
heart
202
connective tissue
175
brain
119
vasculature
113
blood vessel
101
bone element
89
adipose tissue
85
musculature of body
69
blood
69
bodily fluid
57
artery
50
limb
35
eye
24
spleen
23
embryo
19
lung
18
ureter
16
skeleton
1
bone marrow
1
pericardium
1
thymus
Project
609
AMP
Genome assembly (visualization)
455
hg19
363
GRCh38
Lab
548
AMP-T2D consortium
40
Karen Mohlke, UNC
21
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
files.file_type!
hic
tsv
zippedFastqFolder
month_released!
October, 2019
BIOSAMPLE
ASSAY
609 results
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ChIP-seq
ATAC-seq
total RNA-seq
DNase-seq
WGBS
Hi-C
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
1
1
1
2
1
1
tissue
liver
140
20
20
2
3
1
1
right lobe of liver
10
1
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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