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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
390
ChIP-seq
76
total RNA-seq
10
ATAC-seq
5
DNase-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
WGBS
1
whole genome sequencing assay
Assay category
390
DNA binding
76
Transcription
15
DNA accessibility
3D chromatin structure
3
DNA methylation
1
DNA sequencing
Target of assay
304
transcription factor
82
recombinant protein
66
control
57
RNA binding protein
35
histone
35
histone modification
21
chromatin remodeller
narrow histone mark
17
broad histone mark
2
other context
2
other post-translational modification
Date released
308
November, 2017
68
February, 2021
46
November, 2018
30
August, 2021
10
December, 2017
8
June, 2019
6
July, 2019
5
December, 2019
5
January, 2019
1
May, 2020
1
May, 2021
1
October, 2019
Available data
456
bam
405
bigWig
369
fastq
329
bed narrowPeak
302
bigBed narrowPeak
77
tsv
57
bed broadPeak
57
bigBed broadPeak
15
tagAlign
7
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
vcf
Organism
489
Homo sapiens
Biosample type
tissue
456
cell line
22
primary cell
11
in vitro differentiated cells
Organ
452
epithelium
411
liver
395
pancreas
116
connective tissue
91
vasculature
86
blood vessel
78
heart
68
artery
68
blood
68
bodily fluid
50
kidney
29
embryo
15
brain
14
vein
10
musculature of body
4
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
489
AMP
Genome assembly (visualization)
412
hg19
353
GRCh38
Lab
461
AMP-T2D consortium
28
Bing Ren, UCSD
Audit category:
5
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
assay_slims!
3D chromatin structure
biosample_type!
tissue
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
489 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
RRBS
STARR-seq
pCHi-C
WGBS
whole genome sequencing assay
cell line
HepG2
369
14
1
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
primary cell
hepatocyte
2
5
1
1
cardiac fibroblast
3
3
1
Liver fetal (hepatocyte)
1
cardiac atrium fibroblast
1
cardiac ventricle fibroblast
1
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in vitro differentiated cells
hepatocyte
10
cardiac fibroblast
1
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