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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
8
DNase-seq
2
Capture-C
2
FAIRE-seq
2
Hi-C
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
2
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
40
November, 2019
40
September, 2018
39
April, 2018
26
February, 2021
19
September, 2020
10
March, 2020
10
November, 2020
8
January, 2021
7
August, 2020
6
July, 2019
5
October, 2017
5
October, 2019
5
September, 2017
4
August, 2021
4
June, 2019
4
March, 2019
3
August, 2018
3
November, 2018
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
hic
6
txt
3
cool
2
bed bedMethyl
2
bigBed bedMethyl
1
bedpe
1
hdf5
Organism
669
Homo sapiens
Biosample type
381
tissue
226
primary cell
63
cell line
Organ
670
pancreas
525
connective tissue
412
adipose tissue
342
epithelium
301
kidney
248
heart
232
liver
159
bone element
129
vasculature
126
blood vessel
107
artery
68
brain
56
eye
55
limb
54
musculature of body
20
lung
18
ureter
16
skeleton
15
embryo
9
blood
9
bodily fluid
8
nerve
3
spleen
3
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
538
AMP
102
HPAP
30
T1D
Genome assembly (visualization)
488
hg19
474
GRCh38
Lab
500
AMP-T2D consortium
102
Klaus Kaestner, Upenn
51
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
65
inconsistent ontology term
1
audit script error
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
assay_title!
WGBS
files.file_type!
hic
BIOSAMPLE
ASSAY
670 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
MeRIP-seq
DNase-seq
Capture-C
FAIRE-seq
Hi-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
284
58
7
4
1
1
1
1
body of pancreas
3
4
4
2
pancreas
2
4
2
1
1
1
primary cell
pancreatic alpha cell
52
35
12
pancreatic beta cell
21
23
12
pancreatic acinar cell
4
9
12
pancreatic ductal cell
4
4
10
pancreatic delta cell
11
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cell line
EndoC_BH1
33
19
6
2
1
Panc1
1
1
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