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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
101
ChIP-seq
33
total RNA-seq
19
ATAC-seq
7
DNase-seq
4
pCHi-C
4
single cell RNA-seq
2
Capture-C
1
GRO-seq
1
Hi-C
1
RRBS
1
small RNA-seq
Assay category
101
DNA binding
38
Transcription
26
DNA accessibility
1
3D chromatin structure
1
DNA methylation
Target of assay
57
histone
57
histone modification
28
broad histone mark
28
narrow histone mark
26
transcription factor
18
control
5
RNA binding protein
2
chromatin remodeller
Date released
68
August, 2017
17
June, 2019
13
December, 2017
13
February, 2018
13
February, 2023
12
August, 2021
11
February, 2021
8
July, 2019
6
November, 2020
4
May, 2021
2
April, 2018
2
July, 2018
2
October, 2019
1
August, 2018
1
January, 2018
1
March, 2020
Available data
131
bam
118
bigWig
85
fastq
76
bed narrowPeak
35
tsv
24
bed bed3+
18
bigBed narrowPeak
14
tagAlign
7
bed broadPeak
7
bigBed broadPeak
6
bed bed3
4
bed bedgraph
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
Organism
174
Homo sapiens
Biosample type
tissue
126
in vitro differentiated cells
39
primary cell
8
cell line
1
stem cell
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
0
pituitary gland
Project
173
AMP
1
T1D
Genome assembly (visualization)
136
hg19
115
GRCh38
1
hg18
Lab
169
AMP-T2D consortium
4
Struan F.A. Grant, CHOP
1
Kyle Gaulton, UCSD
Audit category:
24
inconsistent ontology term
Audit category:
6
missing controlled_by
Audit category:
9
inconsistent control read length
biosample_type!
tissue
BIOSAMPLE
ASSAY
174 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
pCHi-C
single cell RNA-seq
Capture-C
GRO-seq
Hi-C
RRBS
small RNA-seq
in vitro differentiated cells
adipocyte
67
5
8
1
1
pancreatic endoderm
18
4
1
chondrocyte
5
Hepatic endoderm
4
immature adipocyte
2
2
+ See 6 more…
primary cell
cardiac fibroblast
5
3
1
osteoblast
5
2
1
1
mesenchymal stem cell
7
pancreatic stellate cell
4
brain pericyte
1
1
+ See 7 more…
cell line
H1-hESC
8
stem cell
mesenchymal stem cell
1
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