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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
79
ChIP-seq
ATAC-seq
19
total RNA-seq
7
DNase-seq
4
pCHi-C
4
single cell RNA-seq
2
Capture-C
1
Hi-C
1
RRBS
1
small RNA-seq
Assay category
79
DNA binding
24
Transcription
7
DNA accessibility
1
3D chromatin structure
1
DNA methylation
Target of assay
45
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
68
August, 2017
17
June, 2019
8
July, 2019
6
February, 2021
5
November, 2020
4
February, 2023
2
April, 2018
2
August, 2021
2
July, 2018
2
May, 2021
1
August, 2018
1
March, 2020
Available data
93
bam
84
bigWig
58
bed narrowPeak
58
fastq
21
tsv
17
bed bed3+
16
bigBed narrowPeak
14
tagAlign
7
bed broadPeak
7
bigBed broadPeak
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
Organism
118
Homo sapiens
Biosample type
tissue
80
in vitro differentiated cells
37
primary cell
1
stem cell
Organ
428
liver
418
epithelium
351
pancreas
118
connective tissue
95
vasculature
89
blood vessel
72
heart
68
blood
68
bodily fluid
60
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
117
AMP
1
T1D
Genome assembly (visualization)
88
hg19
84
GRCh38
Lab
115
AMP-T2D consortium
2
Struan F.A. Grant, CHOP
1
Kyle Gaulton, UCSD
Audit category:
16
inconsistent ontology term
Audit category:
5
missing controlled_by
Audit category:
6
inconsistent control read length
assay_title!
ATAC-seq
biosample_type!
tissue
BIOSAMPLE
ASSAY
118 results
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ChIP-seq
total RNA-seq
DNase-seq
pCHi-C
single cell RNA-seq
Capture-C
Hi-C
RRBS
small RNA-seq
in vitro differentiated cells
adipocyte
67
5
1
1
immature adipocyte
2
cardiac fibroblast
1
osteoblast
1
preadipocyte
1
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primary cell
cardiac fibroblast
5
3
1
mesenchymal stem cell
7
osteoblast
5
1
1
pancreatic stellate cell
4
brain pericyte
1
1
+ See 7 more…
stem cell
mesenchymal stem cell
1
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