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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
335
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
335
DNA binding
19
Transcription
4
DNA accessibility
3
3D chromatin structure
2
DNA methylation
1
DNA sequencing
Target of assay
299
transcription factor
82
recombinant protein
control
56
RNA binding protein
33
histone
33
histone modification
21
chromatin remodeller
17
broad histone mark
16
narrow histone mark
2
other context
2
other post-translational modification
Date released
259
November, 2017
46
November, 2018
30
August, 2021
14
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
344
bigWig
335
bam
328
bed narrowPeak
325
fastq
309
bigBed narrowPeak
60
bed broadPeak
60
bigBed broadPeak
20
tsv
14
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
368
Homo sapiens
Biosample type
341
cell line
tissue
14
in vitro differentiated cells
13
primary cell
Organ
479
epithelium
417
pancreas
368
liver
126
connective tissue
97
vasculature
92
blood vessel
76
heart
66
artery
62
blood
62
bodily fluid
49
kidney
29
embryo
20
vein
15
brain
12
musculature of body
4
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
368
AMP
Genome assembly (visualization)
344
hg19
293
GRCh38
Lab
341
AMP-T2D consortium
27
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
biosample_type!
tissue
month_released!
January, 2018
organ_slims!
limb
target.investigated_as!
control
BIOSAMPLE
ASSAY
368 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
318
14
2
1
2
2
1
1
in vitro differentiated cells
hepatocyte
14
primary cell
hepatocyte
3
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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