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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
214
ChIP-seq
169
total RNA-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
ATAC-seq
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
173
Transcription
9
DNA accessibility
7
DNA methylation
4
3D chromatin structure
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
194
May, 2020
74
November, 2017
50
August, 2017
May, 2022
30
December, 2017
24
August, 2021
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
November, 2018
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
355
bam
269
bigWig
174
tsv
138
fastq
92
bed narrowPeak
86
tagAlign
44
bigBed narrowPeak
19
bed broadPeak
19
bigBed broadPeak
11
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
413
Homo sapiens
Biosample type
282
tissue
104
cell line
14
primary cell
13
in vitro differentiated cells
Organ
823
pancreas
644
connective tissue
474
adipose tissue
435
epithelium
413
liver
344
kidney
341
heart
283
brain
227
vasculature
222
blood vessel
159
bone element
136
artery
122
limb
94
musculature of body
60
eye
43
nerve
34
embryo
22
vein
20
lung
19
spleen
18
blood
18
bodily fluid
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
413
AMP
Genome assembly (visualization)
276
hg19
245
GRCh38
Lab
393
AMP-T2D consortium
20
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
month_released!
May, 2022
BIOSAMPLE
ASSAY
413 results
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ChIP-seq
total RNA-seq
DNase-seq
WGBS
Hi-C
ATAC-seq
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
108
147
2
3
1
1
1
1
1
right lobe of liver
8
3
2
1
1
2
cell line
HepG2
81
14
1
2
1
2
2
1
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
13
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