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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
73
total RNA-seq
54
ChIP-seq
47
WGBS
10
MeRIP-seq
8
Hi-C
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
DNA accessibility
73
Transcription
54
DNA binding
49
DNA methylation
8
3D chromatin structure
Target of assay
45
control
14
histone
14
histone modification
8
broad histone mark
6
narrow histone mark
5
nucleotide modification
Date released
47
May, 2022
43
February, 2023
35
August, 2017
16
September, 2020
11
October, 2018
10
November, 2020
October, 2019
6
February, 2021
4
August, 2021
4
July, 2018
4
March, 2020
4
November, 2019
4
September, 2017
3
October, 2022
2
July, 2019
2
May, 2021
1
February, 2020
1
March, 2019
1
May, 2019
Available data
93
fastq
41
zippedFastqFolder
40
bam
11
tagAlign
9
tsv
7
bedpe bed3+
7
hic
6
bed broadPeak
6
bed narrowPeak
6
bigWig
6
txt
3
cool
2
bed bedMethyl
2
bigBed bedMethyl
1
bedpe
Organism
196
Homo sapiens
Biosample type
115
primary cell
70
tissue
12
cell line
1
in vitro differentiated cells
Organ
239
liver
198
pancreas
149
epithelium
134
kidney
126
heart
97
connective tissue
89
bone element
64
adipose tissue
59
brain
41
musculature of body
31
vasculature
29
blood vessel
10
lung
9
limb
9
spleen
8
artery
8
embryo
7
eye
6
blood
6
bodily fluid
4
skeleton
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
nerve
1
ovary
1
pericardium
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
1
vein
Project
103
HPAP
88
AMP
7
T1D
Genome assembly (visualization)
572
hg19
GRCh38
Lab
103
Klaus Kaestner, Upenn
70
AMP-T2D consortium
12
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
Audit category:
11
inconsistent ontology term
3
audit script error
month_released!
October, 2019
assembly!
GRCh38
assay_slims!
DNA accessibility
BIOSAMPLE
ASSAY
198 results
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total RNA-seq
ChIP-seq
WGBS
MeRIP-seq
Hi-C
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
primary cell
pancreatic alpha cell
42
6
31
1
pancreatic beta cell
11
6
16
1
pancreatic acinar cell
1
tissue
islet of Langerhans
18
25
4
3
1
body of pancreas
1
9
pancreas
1
3
1
1
1
endocrine pancreas
2
cell line
EndoC_BH1
2
6
1
2
1
in vitro differentiated cells
pancreatic PP cell
1
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