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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
364
ChIP-seq
14
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
364
DNA binding
14
Transcription
4
DNA accessibility
3
3D chromatin structure
2
DNA methylation
1
DNA sequencing
Target of assay
299
transcription factor
82
recombinant protein
62
control
56
RNA binding protein
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
300
November, 2017
46
November, 2018
29
August, 2021
December, 2019
5
January, 2019
3
December, 2017
2
February, 2021
2
July, 2019
2
June, 2019
1
December, 2018
1
May, 2020
1
October, 2019
Available data
358
bam
355
fastq
319
bigWig
297
bed narrowPeak
284
bigBed narrowPeak
46
bed broadPeak
46
bigBed broadPeak
15
tsv
4
bed bed3+
3
tar
2
bed bedMethyl
2
bigBed bedMethyl
2
tagAlign
1
bed bed3
1
bedpe bed3+
1
hdf5
1
hic
1
vcf
Organism
392
Homo sapiens
Biosample type
383
cell line
tissue
6
primary cell
3
in vitro differentiated cells
Organ
411
epithelium
392
liver
363
pancreas
92
connective tissue
86
vasculature
81
blood vessel
78
heart
68
artery
68
blood
68
bodily fluid
45
kidney
25
embryo
18
brain
7
vein
6
musculature of body
4
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
392
AMP
Genome assembly (visualization)
319
hg19
260
GRCh38
Lab
364
AMP-T2D consortium
28
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
assay_title!
MPRA
biosample_type!
tissue
month_released!
December, 2019
target.investigated_as!
histone
BIOSAMPLE
ASSAY
392 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
360
14
2
1
2
2
1
1
primary cell
hepatocyte
1
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
3
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