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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
403
total RNA-seq
152
ATAC-seq
74
single cell RNA-seq
WGBS
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
8
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
173
DNA accessibility
9
3D chromatin structure
2
DNA methylation
Target of assay
5
control
5
nucleotide modification
Date released
157
July, 2018
94
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
10
November, 2020
8
January, 2021
7
August, 2020
6
July, 2019
5
March, 2019
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
487
bam
458
bigWig
411
tsv
314
fastq
74
bed narrowPeak
39
zippedFastqFolder
32
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
676
Homo sapiens
Biosample type
384
tissue
229
primary cell
64
cell line
Organ
677
pancreas
525
connective tissue
412
adipose tissue
348
epithelium
302
kidney
251
heart
234
liver
159
bone element
132
vasculature
129
blood vessel
107
artery
68
brain
56
eye
56
musculature of body
55
limb
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
542
AMP
105
HPAP
30
T1D
Genome assembly (visualization)
495
hg19
474
GRCh38
Lab
503
AMP-T2D consortium
105
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
assay_title!
WGBS
BIOSAMPLE
ASSAY
677 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
MeRIP-seq
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
284
58
7
4
3
1
1
1
body of pancreas
3
4
4
2
pancreas
2
4
1
2
1
1
1
primary cell
pancreatic alpha cell
52
35
12
1
pancreatic beta cell
21
23
12
1
pancreatic acinar cell
4
9
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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