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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
551
ChIP-seq
189
total RNA-seq
24
ATAC-seq
8
snATAC-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
551
DNA binding
193
Transcription
38
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
389
transcription factor
114
control
104
histone modification
103
histone
82
recombinant protein
68
RNA binding protein
narrow histone mark
42
broad histone mark
33
chromatin remodeller
2
other context
2
other post-translational modification
Date released
308
November, 2017
167
May, 2020
68
November, 2018
56
December, 2017
41
August, 2017
40
May, 2022
31
August, 2021
28
December, 2018
22
January, 2019
10
July, 2019
8
January, 2021
5
December, 2019
5
October, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
1
January, 2018
Available data
690
bam
624
bigWig
505
fastq
443
bed narrowPeak
397
bigBed narrowPeak
174
tsv
57
bed broadPeak
57
bigBed broadPeak
46
tagAlign
11
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
799
Homo sapiens
Biosample type
452
cell line
317
tissue
20
primary cell
10
in vitro differentiated cells
Organ
817
pancreas
731
liver
637
connective tissue
478
adipose tissue
423
epithelium
339
kidney
317
heart
175
vasculature
170
blood vessel
168
brain
151
bone element
107
limb
100
artery
83
musculature of body
68
blood
68
bodily fluid
35
nerve
29
embryo
27
eye
23
spleen
20
lung
18
ureter
16
vein
8
skeleton
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
791
AMP
8
T1D
Genome assembly (visualization)
627
hg19
543
GRCh38
Lab
722
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
28
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
month_released!
February, 2023
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
799 results
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ChIP-seq
total RNA-seq
ATAC-seq
snATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
369
14
1
1
2
2
2
1
GM12878
59
1
tissue
liver
103
167
20
2
3
1
1
1
1
1
right lobe of liver
8
3
1
2
1
2
primary cell
hepatocyte
2
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
10
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