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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
358
total RNA-seq
ChIP-seq
133
ATAC-seq
75
single cell RNA-seq
51
WGBS
11
snATAC-seq
8
DNase-seq
8
Hi-C
4
MeRIP-seq
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
435
Transcription
154
DNA accessibility
53
DNA methylation
8
3D chromatin structure
Target of assay
2
control
2
nucleotide modification
Date released
152
July, 2018
98
May, 2022
94
August, 2017
56
February, 2023
40
September, 2018
39
April, 2018
39
November, 2019
37
May, 2021
19
September, 2020
8
January, 2021
7
August, 2020
7
March, 2020
7
November, 2018
6
February, 2021
6
July, 2019
5
March, 2019
5
October, 2017
5
October, 2019
5
September, 2017
4
June, 2019
4
November, 2020
3
August, 2018
3
October, 2022
2
August, 2021
2
October, 2018
1
August, 2022
1
February, 2020
1
June, 2018
Available data
452
bam
422
bigWig
378
tsv
319
fastq
80
zippedFastqFolder
73
bed narrowPeak
32
bigBed narrowPeak
9
bed broadPeak
8
bed bed3+
7
bigBed broadPeak
6
bed bedMethyl
6
bedpe bed3+
6
bigBed bedMethyl
6
hic
txt
3
cool
1
bedpe
1
hdf5
Organism
655
Homo sapiens
Biosample type
382
tissue
271
primary cell
3
cell line
Organ
656
pancreas
523
connective tissue
417
adipose tissue
329
epithelium
257
heart
238
liver
233
kidney
133
vasculature
131
blood vessel
107
artery
71
bone element
67
brain
56
eye
55
limb
55
musculature of body
20
lung
18
ureter
13
embryo
12
skeleton
9
blood
9
bodily fluid
8
nerve
5
spleen
5
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
Project
476
AMP
152
HPAP
28
T1D
Genome assembly (visualization)
453
hg19
439
GRCh38
Lab
447
AMP-T2D consortium
152
Klaus Kaestner, Upenn
45
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
files.file_type!
txt
assay_title!
ChIP-seq
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
656 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
WGBS
snATAC-seq
DNase-seq
Hi-C
MeRIP-seq
FAIRE-seq
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
272
58
6
7
1
3
4
1
1
body of pancreas
3
4
2
4
2
pancreas
2
2
4
2
1
1
1
1
primary cell
pancreatic alpha cell
52
35
12
31
1
pancreatic beta cell
21
23
12
16
1
pancreatic acinar cell
4
9
11
1
pancreatic ductal cell
4
4
10
pancreatic delta cell
11
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cell line
Panc1
1
1
EndoC_BH1
1
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