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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
548
ChIP-seq
189
total RNA-seq
24
ATAC-seq
8
snATAC-seq
4
Hi-C
4
WGBS
3
DNase-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
548
DNA binding
193
Transcription
35
DNA accessibility
6
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
328
transcription factor
111
control
104
histone modification
103
histone
66
recombinant protein
61
narrow histone mark
47
RNA binding protein
42
broad histone mark
26
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
November, 2018
63
December, 2017
54
August, 2017
40
May, 2022
35
August, 2021
28
December, 2018
23
January, 2019
10
July, 2019
8
January, 2021
7
October, 2019
5
December, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
1
January, 2018
Available data
673
bam
613
bigWig
457
fastq
432
bed narrowPeak
349
bigBed narrowPeak
174
tsv
86
tagAlign
60
bed broadPeak
60
bigBed broadPeak
10
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
792
Homo sapiens
Biosample type
401
cell line
354
tissue
22
primary cell
15
in vitro differentiated cells
Organ
939
pancreas
738
liver
683
connective tissue
524
epithelium
490
adipose tissue
354
kidney
353
heart
284
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
96
musculature of body
61
eye
54
blood
54
bodily fluid
43
nerve
37
embryo
22
vein
20
lung
18
ureter
16
skeleton
16
spleen
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
784
AMP
8
T1D
Genome assembly (visualization)
619
hg19
521
GRCh38
Lab
713
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
28
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
10
missing controlled_by
Audit category:
22
inconsistent control read length
4
inconsistent control run_type
month_released!
November, 2018
BIOSAMPLE
ASSAY
792 results
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ChIP-seq
total RNA-seq
ATAC-seq
snATAC-seq
Hi-C
WGBS
DNase-seq
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
333
14
1
2
2
2
1
GM12878
45
1
tissue
liver
141
167
20
1
3
1
1
1
1
right lobe of liver
10
3
1
1
1
2
primary cell
hepatocyte
4
5
1
1
peripheral blood mononuclear cell
8
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
15
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