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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
572
ChIP-seq
24
ATAC-seq
20
total RNA-seq
7
DNase-seq
7
WGBS
4
Hi-C
2
RRBS
2
STARR-seq
1
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
572
DNA binding
31
DNA accessibility
21
Transcription
9
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
344
transcription factor
116
control
109
histone modification
108
histone
82
recombinant protein
62
narrow histone mark
58
RNA binding protein
46
broad histone mark
23
chromatin remodeller
5
other context
5
other post-translational modification
Date released
315
November, 2017
63
December, 2017
62
November, 2018
54
August, 2017
50
May, 2020
40
May, 2022
26
August, 2021
8
December, 2018
7
January, 2019
6
October, 2019
3
February, 2021
3
July, 2019
2
June, 2019
1
March, 2020
1
October, 2017
Available data
705
bam
638
bigWig
489
fastq
455
bed narrowPeak
371
bigBed narrowPeak
tsv
86
tagAlign
64
bed broadPeak
64
bigBed broadPeak
14
bed bed3+
5
bed bedMethyl
5
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
641
Homo sapiens
Biosample type
386
cell line
231
tissue
15
in vitro differentiated cells
9
primary cell
Organ
617
liver
529
pancreas
368
epithelium
330
kidney
260
brain
206
connective tissue
185
heart
168
vasculature
162
blood vessel
115
limb
101
bone element
90
adipose tissue
87
musculature of body
83
artery
69
blood
69
bodily fluid
56
eye
38
nerve
24
spleen
23
embryo
22
vein
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
bone marrow
1
lymph node
1
pericardium
1
skin of body
1
thymus
Project
641
AMP
Genome assembly (visualization)
477
hg19
385
GRCh38
Lab
579
AMP-T2D consortium
40
Karen Mohlke, UNC
22
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
files.file_type!
tsv
BIOSAMPLE
ASSAY
641 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
2
2
1
1
tissue
liver
145
20
20
2
3
1
1
1
spleen
20
1
1
2
right lobe of liver
10
1
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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