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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
113
ATAC-seq
80
single cell RNA-seq
11
snATAC-seq
10
MeRIP-seq
10
WGBS
9
Hi-C
4
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
DNA binding
130
DNA accessibility
12
DNA methylation
9
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
5
October, 2019
5
September, 2017
4
August, 2021
June, 2019
3
August, 2018
3
October, 2022
2
October, 2018
1
August, 2022
1
February, 2020
1
June, 2018
Available data
487
bam
458
bigWig
417
tsv
324
fastq
zippedFastqFolder
70
bed narrowPeak
28
bigBed narrowPeak
7
bedpe bed3+
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
5
bed broadPeak
4
bed bed3+
3
bigBed broadPeak
3
cool
1
bedpe
1
hdf5
Organism
643
Homo sapiens
Biosample type
384
tissue
196
primary cell
64
cell line
Organ
644
pancreas
525
connective tissue
417
adipose tissue
301
epithelium
237
liver
229
heart
224
kidney
159
bone element
127
vasculature
126
blood vessel
105
artery
52
eye
38
brain
24
limb
24
musculature of body
20
lung
16
skeleton
15
embryo
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
1
stomach
1
urinary bladder
Project
542
AMP
72
HPAP
30
T1D
Genome assembly (visualization)
493
hg19
474
GRCh38
Lab
503
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
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
files.file_type!
zippedFastqFolder
month_released!
June, 2019
BIOSAMPLE
ASSAY
644 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
58
6
7
4
3
1
1
1
body of pancreas
3
4
2
2
2
pancreas
2
4
2
1
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
Panc1
1
1
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