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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
34
ChIP-seq
19
ATAC-seq
19
total RNA-seq
7
DNase-seq
4
single cell RNA-seq
3
pCHi-C
2
Capture-C
1
Hi-C
1
RRBS
1
small RNA-seq
Assay category
34
DNA binding
26
DNA accessibility
24
Transcription
1
3D chromatin structure
1
DNA methylation
Target of assay
histone
45
histone modification
24
broad histone mark
23
transcription factor
20
narrow histone mark
11
control
5
RNA binding protein
2
chromatin remodeller
Date released
31
August, 2017
13
February, 2023
11
February, 2021
9
June, 2019
8
July, 2019
6
November, 2020
4
August, 2021
2
April, 2018
2
July, 2018
2
May, 2021
2
October, 2019
1
March, 2020
Available data
62
bam
56
bigWig
33
fastq
29
bed narrowPeak
21
bed bed3+
21
tsv
10
bigBed narrowPeak
7
bed broadPeak
7
bigBed broadPeak
6
bed bed3
4
bed bedgraph
2
tagAlign
1
bed bedMethyl
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
Organism
91
Homo sapiens
Biosample type
tissue
59
in vitro differentiated cells
31
primary cell
1
stem cell
Organ
411
epithelium
369
liver
359
pancreas
91
connective tissue
85
vasculature
80
blood vessel
78
heart
68
artery
68
blood
68
bodily fluid
43
kidney
25
embryo
18
brain
6
musculature of body
6
vein
4
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
90
AMP
1
T1D
Genome assembly (visualization)
74
hg19
53
GRCh38
Lab
86
AMP-T2D consortium
4
Struan F.A. Grant, CHOP
1
Kyle Gaulton, UCSD
Audit category:
10
inconsistent ontology term
Audit category:
5
missing controlled_by
Audit category:
6
inconsistent control read length
biosample_type!
tissue
files.file_type!
bedpe bed3+
lab.title!
Bing Ren, UCSD
target.investigated_as!
histone
BIOSAMPLE
ASSAY
91 results
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ChIP-seq
ATAC-seq
total RNA-seq
DNase-seq
single cell RNA-seq
pCHi-C
Capture-C
Hi-C
RRBS
small RNA-seq
in vitro differentiated cells
adipocyte
30
8
5
1
1
chondrocyte
5
immature adipocyte
2
2
osteoblast
1
1
preadipocyte
1
1
+ See 1 more…
primary cell
osteoblast
2
5
1
1
cardiac fibroblast
3
3
1
pancreatic stellate cell
4
brain pericyte
1
1
mesenchymal stem cell of adipose
1
1
+ See 7 more…
stem cell
mesenchymal stem cell
1
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