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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
76
total RNA-seq
29
ChIP-seq
19
ATAC-seq
7
DNase-seq
4
single cell RNA-seq
3
pCHi-C
2
Capture-C
1
Hi-C
1
RRBS
Assay category
80
Transcription
29
DNA binding
26
DNA accessibility
1
3D chromatin structure
1
DNA methylation
Target of assay
histone
46
histone modification
24
broad histone mark
21
narrow histone mark
18
transcription factor
11
control
5
RNA binding protein
2
chromatin remodeller
Date released
69
February, 2021
26
August, 2017
13
February, 2023
9
June, 2019
6
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
113
bam
107
bigWig
77
tsv
29
bed narrowPeak
27
fastq
21
bed bed3+
10
bigBed narrowPeak
7
bed broadPeak
7
bigBed broadPeak
6
bed bed3
4
bed bedgraph
2
tagAlign
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
Organism
142
Homo sapiens
Biosample type
58
tissue
54
in vitro differentiated cells
29
primary cell
1
stem cell
Organ
789
pancreas
677
liver
589
connective tissue
adipose tissue
431
epithelium
324
kidney
296
heart
165
vasculature
160
blood vessel
159
bone element
121
artery
99
brain
73
limb
68
blood
68
bodily fluid
63
musculature of body
58
eye
25
embryo
20
lung
19
nerve
19
spleen
18
ureter
16
skeleton
7
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
141
AMP
1
T1D
Genome assembly (visualization)
125
hg19
104
GRCh38
Lab
137
AMP-T2D consortium
4
Struan F.A. Grant, CHOP
1
Kyle Gaulton, UCSD
Audit category:
10
inconsistent ontology term
Audit category:
missing controlled_by
Audit category:
6
inconsistent control read length
target.investigated_as!
histone
organ_slims!
adipose tissue
audit.NOT_COMPLIANT.category!
missing controlled_by
BIOSAMPLE
ASSAY
142 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
pCHi-C
Capture-C
Hi-C
RRBS
tissue
bone tissue
58
in vitro differentiated cells
adipocyte
5
25
8
1
1
chondrocyte
5
immature adipocyte
2
2
osteoblast
1
1
preadipocyte
1
1
+ See 1 more…
primary cell
osteoblast
5
2
1
1
cardiac fibroblast
3
3
1
pancreatic stellate cell
4
brain pericyte
1
1
adult endothelial progenitor cell
1
+ See 6 more…
stem cell
mesenchymal stem cell
1
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