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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
468
ChIP-seq
76
total RNA-seq
11
ATAC-seq
8
snATAC-seq
5
DNase-seq
3
Hi-C
2
RRBS
2
STARR-seq
2
pCHi-C
1
WGBS
1
whole genome sequencing assay
Assay category
468
DNA binding
76
Transcription
24
DNA accessibility
3
3D chromatin structure
3
DNA methylation
1
DNA sequencing
Target of assay
355
transcription factor
82
recombinant protein
72
control
67
RNA binding protein
36
histone
36
histone modification
31
chromatin remodeller
19
narrow histone mark
17
broad histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
68
February, 2021
61
November, 2018
35
August, 2021
28
December, 2018
23
January, 2019
15
December, 2017
10
June, 2019
8
January, 2021
7
July, 2019
5
December, 2019
1
January, 2018
1
May, 2020
1
May, 2021
1
October, 2019
Available data
532
bam
479
bigWig
442
fastq
400
bed narrowPeak
369
bigBed narrowPeak
77
tsv
63
bed broadPeak
63
bigBed broadPeak
22
tagAlign
10
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
hdf5
1
hic
1
vcf
Organism
579
Homo sapiens
Biosample type
tissue
528
cell line
35
primary cell
16
in vitro differentiated cells
Organ
509
epithelium
441
pancreas
430
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
571
AMP
8
T1D
Genome assembly (visualization)
487
hg19
422
GRCh38
Lab
540
AMP-T2D consortium
31
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
7
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
biosample_type!
tissue
organ_slims!
ovary
BIOSAMPLE
ASSAY
579 results
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ChIP-seq
total RNA-seq
ATAC-seq
snATAC-seq
DNase-seq
Hi-C
RRBS
STARR-seq
pCHi-C
WGBS
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
primary cell
hepatocyte
4
5
1
1
cardiac fibroblast
5
3
1
peripheral blood mononuclear cell
8
Liver fetal (hepatocyte)
1
cardiac atrium fibroblast
1
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in vitro differentiated cells
hepatocyte
15
cardiac fibroblast
1
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