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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
308
total RNA-seq
149
ATAC-seq
ChIP-seq
80
single cell RNA-seq
WGBS
11
snATAC-seq
9
Hi-C
7
DNase-seq
5
MeRIP-seq
2
Capture-C
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
FAIRE-seq
1
pCHi-C
Assay category
390
Transcription
168
DNA accessibility
9
3D chromatin structure
2
DNA methylation
Target of assay
5
control
nucleotide modification
Date released
157
July, 2018
August, 2017
63
May, 2022
57
May, 2021
56
February, 2023
42
November, 2019
40
September, 2018
39
April, 2018
26
February, 2021
19
September, 2020
11
March, 2020
8
January, 2021
7
August, 2020
6
July, 2019
5
March, 2019
5
November, 2020
5
October, 2017
5
October, 2019
5
September, 2017
4
August, 2021
4
June, 2019
3
August, 2018
3
November, 2018
3
October, 2022
2
October, 2018
1
August, 2022
1
February, 2020
1
June, 2018
Available data
393
bam
364
bigWig
322
tsv
220
fastq
69
bed narrowPeak
39
zippedFastqFolder
27
bigBed narrowPeak
9
bed broadPeak
8
bed bed3+
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
txt
3
cool
2
bed bedMethyl
2
bigBed bedMethyl
1
bedpe
1
hdf5
Organism
577
Homo sapiens
Biosample type
291
tissue
226
primary cell
61
cell line
Organ
578
pancreas
523
connective tissue
411
adipose tissue
342
epithelium
302
kidney
251
heart
231
liver
159
bone element
132
vasculature
129
blood vessel
107
artery
68
brain
56
eye
55
limb
52
musculature of body
20
lung
18
ureter
16
skeleton
15
embryo
9
blood
9
bodily fluid
8
nerve
5
vein
3
spleen
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
443
AMP
105
HPAP
30
T1D
Genome assembly (visualization)
401
hg19
381
GRCh38
Lab
409
AMP-T2D consortium
105
Klaus Kaestner, Upenn
51
Kyle Gaulton, UCSD
5
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:
63
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
assay_title!
ChIP-seq
WGBS
month_released!
August, 2017
target.investigated_as!
nucleotide modification
BIOSAMPLE
ASSAY
578 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
Hi-C
DNase-seq
MeRIP-seq
Capture-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
FAIRE-seq
pCHi-C
tissue
islet of Langerhans
189
58
6
7
3
2
1
body of pancreas
3
4
4
2
pancreas
2
4
1
2
1
1
1
primary cell
pancreatic alpha cell
52
34
12
1
pancreatic beta cell
21
22
12
1
pancreatic acinar cell
4
8
12
1
pancreatic ductal cell
4
4
10
pancreatic delta cell
11
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cell line
EndoC_BH1
33
19
1
3
2
1
Panc1
1
1
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