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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
389
ChIP-seq
19
total RNA-seq
3
Hi-C
2
ATAC-seq
2
DNase-seq
2
STARR-seq
2
pCHi-C
1
RRBS
1
WGBS
1
whole genome sequencing assay
Assay category
389
DNA binding
19
Transcription
4
DNA accessibility
3
3D chromatin structure
2
DNA methylation
1
DNA sequencing
Target of assay
291
transcription factor
82
recombinant protein
62
control
53
RNA binding protein
33
histone
33
histone modification
17
broad histone mark
16
narrow histone mark
13
chromatin remodeller
2
other context
2
other post-translational modification
Date released
311
November, 2017
42
November, 2018
35
August, 2021
15
December, 2017
5
December, 2019
5
January, 2019
2
February, 2021
2
July, 2019
2
June, 2019
1
December, 2018
1
May, 2020
1
October, 2019
Available data
385
bam
374
fastq
349
bigWig
320
bed narrowPeak
301
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
422
Homo sapiens
Biosample type
393
cell line
tissue
15
in vitro differentiated cells
14
primary cell
Organ
509
epithelium
441
pancreas
422
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
422
AMP
Genome assembly (visualization)
349
hg19
287
GRCh38
Lab
391
AMP-T2D consortium
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
26
inconsistent control read length
inconsistent control run_type
organ_slims!
gonad
audit.WARNING.category!
inconsistent control run_type
biosample_type!
tissue
BIOSAMPLE
ASSAY
422 results
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ChIP-seq
total RNA-seq
Hi-C
ATAC-seq
DNase-seq
STARR-seq
pCHi-C
RRBS
WGBS
whole genome sequencing assay
cell line
HepG2
370
14
2
1
2
2
1
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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