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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
457
ChIP-seq
19
total RNA-seq
8
snATAC-seq
3
ATAC-seq
3
Hi-C
2
DNase-seq
2
STARR-seq
2
pCHi-C
1
RRBS
1
WGBS
1
whole genome sequencing assay
Assay category
457
DNA binding
19
Transcription
13
DNA accessibility
3
3D chromatin structure
2
DNA methylation
1
DNA sequencing
Target of assay
350
transcription factor
82
recombinant protein
68
control
66
RNA binding protein
34
histone
34
histone modification
31
chromatin remodeller
17
broad histone mark
17
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
35
August, 2021
28
December, 2018
23
January, 2019
15
December, 2017
8
January, 2021
5
December, 2019
2
February, 2021
2
July, 2019
2
June, 2019
1
January, 2018
1
May, 2020
1
October, 2019
Available data
453
bam
442
fastq
412
bigWig
382
bed narrowPeak
363
bigBed narrowPeak
60
bed broadPeak
60
bigBed broadPeak
20
tsv
16
tagAlign
7
bed bed3+
3
tar
2
bed bedMethyl
2
bigBed bedMethyl
1
bed bed3
1
bedpe bed3+
1
hdf5
1
hic
1
vcf
Organism
499
Homo sapiens
Biosample type
462
cell line
tissue
22
primary cell
15
in vitro differentiated cells
Organ
509
epithelium
441
pancreas
430
liver
137
connective tissue
103
vasculature
97
blood vessel
80
heart
69
blood
69
bodily fluid
68
artery
55
kidney
37
embryo
22
vein
21
brain
14
musculature of body
5
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
491
AMP
8
T1D
Genome assembly (visualization)
412
hg19
347
GRCh38
Lab
460
AMP-T2D consortium
31
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
1
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
organ_slims!
ovary
biosample_type!
tissue
BIOSAMPLE
ASSAY
499 results
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ChIP-seq
total RNA-seq
snATAC-seq
ATAC-seq
Hi-C
DNase-seq
STARR-seq
pCHi-C
RRBS
WGBS
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
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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