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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
397
total RNA-seq
ChIP-seq
110
ATAC-seq
80
single cell RNA-seq
11
snATAC-seq
10
MeRIP-seq
10
WGBS
8
Hi-C
7
DNase-seq
2
Capture-C
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
479
Transcription
130
DNA accessibility
12
DNA methylation
8
3D chromatin structure
Target of assay
5
control
5
nucleotide modification
Date released
157
July, 2018
94
August, 2017
57
May, 2021
56
February, 2023
42
November, 2019
40
September, 2018
39
April, 2018
32
February, 2021
24
May, 2022
19
September, 2020
11
March, 2020
10
November, 2020
8
January, 2021
7
August, 2020
7
November, 2018
6
July, 2019
5
March, 2019
5
October, 2017
October, 2019
5
September, 2017
4
August, 2021
4
June, 2019
3
August, 2018
3
October, 2022
2
October, 2018
1
August, 2022
1
February, 2020
1
June, 2018
Available data
490
bam
460
bigWig
417
tsv
324
fastq
zippedFastqFolder
73
bed narrowPeak
31
bigBed narrowPeak
8
bed broadPeak
7
bedpe bed3+
7
hic
6
bed bed3+
6
bed bedMethyl
6
bigBed bedMethyl
6
bigBed broadPeak
6
txt
3
cool
1
bedpe
Organism
642
Homo sapiens
Biosample type
385
tissue
196
primary cell
62
cell line
Organ
643
pancreas
528
connective tissue
417
adipose tissue
304
epithelium
293
kidney
256
heart
237
liver
159
bone element
127
vasculature
124
blood vessel
104
artery
66
brain
57
musculature of body
46
limb
37
eye
20
lung
18
ureter
16
skeleton
15
embryo
9
blood
9
bodily fluid
5
spleen
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
nerve
1
ovary
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
1
vein
Project
541
AMP
72
HPAP
30
T1D
Genome assembly (visualization)
493
hg19
476
GRCh38
Lab
502
AMP-T2D consortium
72
Klaus Kaestner, Upenn
51
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
66
inconsistent ontology term
4
audit script error
month_released!
October, 2019
files.file_type!
zippedFastqFolder
assay_title!
ChIP-seq
BIOSAMPLE
ASSAY
643 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
MeRIP-seq
WGBS
Hi-C
DNase-seq
Capture-C
FAIRE-seq
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
278
55
6
7
4
3
1
1
1
body of pancreas
3
4
2
4
2
pancreas
2
4
2
1
2
1
1
1
primary cell
pancreatic alpha cell
52
13
12
6
1
pancreatic beta cell
21
10
12
1
pancreatic acinar cell
4
5
12
1
pancreatic ductal cell
4
4
10
pancreatic delta cell
11
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cell line
EndoC_BH1
33
19
6
1
2
1
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