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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
364
total RNA-seq
133
ATAC-seq
75
single cell RNA-seq
51
WGBS
10
snATAC-seq
8
DNase-seq
5
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
441
Transcription
153
DNA accessibility
DNA binding
53
DNA methylation
5
3D chromatin structure
Target of assay
2
control
2
nucleotide modification
Date released
152
July, 2018
104
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
2
August, 2021
2
October, 2018
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
bigBed bedMethyl
6
txt
3
bedpe bed3+
3
hic
1
bedpe
1
hdf5
Organism
657
Homo sapiens
Biosample type
387
tissue
268
primary cell
3
cell line
Organ
658
pancreas
523
connective tissue
417
adipose tissue
324
epithelium
288
kidney
257
heart
238
liver
132
vasculature
130
blood vessel
107
artery
75
bone element
67
brain
56
eye
55
limb
55
musculature of body
20
lung
18
ureter
16
skeleton
13
embryo
9
blood
9
bodily fluid
8
nerve
5
spleen
4
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
481
AMP
149
HPAP
28
T1D
Genome assembly (visualization)
450
hg19
439
GRCh38
Lab
446
AMP-T2D consortium
149
Klaus Kaestner, Upenn
51
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
audit script error
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
audit.ERROR.category!
audit script error
inconsistent ontology term
audit.NOT_COMPLIANT.category!
missing controlled_by
BIOSAMPLE
ASSAY
658 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
278
58
6
6
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
pancreatic beta cell
21
23
12
16
pancreatic acinar cell
4
9
11
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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