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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
612
ChIP-seq
169
total RNA-seq
8
snATAC-seq
6
DNase-seq
5
WGBS
4
ATAC-seq
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
612
DNA binding
173
Transcription
18
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
61
narrow histone mark
42
broad histone mark
33
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
68
November, 2018
63
December, 2017
54
August, 2017
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
741
bam
657
bigWig
525
fastq
475
bed narrowPeak
412
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
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
820
Homo sapiens
Biosample type
462
cell line
321
tissue
22
primary cell
15
in vitro differentiated cells
Organ
842
pancreas
751
liver
684
connective tissue
491
adipose tissue
444
epithelium
354
kidney
353
heart
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
94
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
812
AMP
8
T1D
Genome assembly (visualization)
660
hg19
585
GRCh38
Lab
781
AMP-T2D consortium
31
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
28
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
month_released!
May, 2022
BIOSAMPLE
ASSAY
820 results
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ChIP-seq
total RNA-seq
snATAC-seq
DNase-seq
WGBS
ATAC-seq
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
2
2
1
GM12878
60
1
tissue
liver
145
147
2
3
1
1
1
1
1
right lobe of liver
10
3
2
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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