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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
214
ChIP-seq
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
214
DNA binding
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
4
Transcription
1
DNA sequencing
Target of assay
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
74
November, 2017
51
May, 2020
50
August, 2017
30
December, 2017
20
May, 2022
15
August, 2021
6
July, 2019
6
October, 2019
4
November, 2018
3
February, 2021
2
June, 2019
2
March, 2020
1
December, 2018
Available data
196
bam
133
fastq
130
bigWig
112
bed narrowPeak
86
tagAlign
44
bigBed narrowPeak
19
bed broadPeak
19
bigBed broadPeak
11
bed bed3+
5
tsv
3
bed bedMethyl
3
bigBed bedMethyl
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
264
Homo sapiens
Biosample type
152
tissue
90
cell line
13
in vitro differentiated cells
9
primary cell
Organ
524
pancreas
384
epithelium
284
kidney
269
heart
266
brain
264
liver
170
connective tissue
166
vasculature
161
blood vessel
115
limb
97
bone element
90
musculature of body
80
artery
76
adipose tissue
41
eye
38
nerve
22
vein
20
embryo
20
lung
19
spleen
18
blood
18
bodily fluid
18
ureter
12
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
264
AMP
Genome assembly (visualization)
137
hg19
86
GRCh38
Lab
233
AMP-T2D consortium
20
Karen Mohlke, UNC
11
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
12
inconsistent control read length
target.investigated_as!
transcription factor
assay_title!
total RNA-seq
BIOSAMPLE
ASSAY
264 results
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ChIP-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
108
20
2
3
1
1
1
1
1
right lobe of liver
8
1
2
1
2
cell line
HepG2
81
1
1
2
2
2
1
in vitro differentiated cells
hepatocyte
13
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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