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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
512
ChIP-seq
180
total RNA-seq
24
ATAC-seq
8
snATAC-seq
6
DNase-seq
5
WGBS
3
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
1
single cell RNA-seq
Assay category
512
DNA binding
184
Transcription
38
DNA accessibility
7
DNA methylation
3
3D chromatin structure
Target of assay
378
transcription factor
110
control
101
histone modification
100
histone
recombinant protein
67
RNA binding protein
59
narrow histone mark
41
broad histone mark
33
chromatin remodeller
2
other context
2
other post-translational modification
Date released
249
November, 2017
194
May, 2020
63
December, 2017
54
August, 2017
52
November, 2018
40
May, 2022
28
December, 2018
23
January, 2019
10
July, 2019
8
January, 2021
7
October, 2019
5
December, 2019
4
August, 2021
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
1
January, 2018
Available data
659
bam
582
bigWig
443
fastq
400
bed narrowPeak
331
bigBed narrowPeak
165
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
Organism
747
Homo sapiens
Biosample type
361
tissue
349
cell line
22
primary cell
15
in vitro differentiated cells
Organ
942
pancreas
684
connective tissue
678
liver
524
epithelium
491
adipose tissue
393
heart
345
kidney
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
96
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
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
739
AMP
8
T1D
Genome assembly (visualization)
587
hg19
504
GRCh38
Lab
699
AMP-T2D consortium
40
Karen Mohlke, UNC
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:
26
inconsistent control read length
8
inconsistent control run_type
target.investigated_as!
recombinant protein
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
747 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
single cell RNA-seq
tissue
liver
145
167
20
2
3
1
1
1
1
1
right lobe of liver
10
3
1
2
1
2
cell line
HepG2
278
5
1
1
1
2
GM12878
60
1
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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