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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
382
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
382
DNA binding
19
Transcription
4
DNA accessibility
3
3D chromatin structure
2
DNA methylation
1
DNA sequencing
Target of assay
297
transcription factor
82
recombinant protein
61
control
54
RNA binding protein
21
histone
21
histone modification
20
chromatin remodeller
11
narrow histone mark
10
broad histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
46
November, 2018
35
August, 2021
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
378
bam
367
fastq
343
bigWig
314
bed narrowPeak
295
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
415
Homo sapiens
Biosample type
401
cell line
361
tissue
15
in vitro differentiated cells
14
primary cell
Organ
482
epithelium
435
pancreas
415
liver
103
vasculature
97
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
55
kidney
39
connective tissue
22
vein
21
brain
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
415
AMP
Genome assembly (visualization)
343
hg19
279
GRCh38
Lab
384
AMP-T2D consortium
31
Bing Ren, UCSD
Audit category:
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
target.investigated_as!
nucleotide modification
BIOSAMPLE
ASSAY
415 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
378
14
2
1
2
2
1
1
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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