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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
ATAC-seq
74
single cell RNA-seq
51
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
53
DNA methylation
21
DNA accessibility
9
3D chromatin structure
Target of assay
5
control
5
nucleotide modification
Date released
157
July, 2018
91
August, 2017
47
May, 2022
45
February, 2023
41
May, 2021
39
April, 2018
32
February, 2021
26
September, 2018
22
November, 2019
16
September, 2020
10
November, 2020
8
January, 2021
7
March, 2020
7
November, 2018
6
July, 2019
4
August, 2021
4
June, 2019
3
August, 2018
3
October, 2022
2
October, 2018
2
October, 2019
1
August, 2022
1
February, 2020
1
June, 2018
1
March, 2019
Available data
426
bam
421
bigWig
415
tsv
268
fastq
41
zippedFastqFolder
10
bed narrowPeak
10
bigBed narrowPeak
8
bed bed3+
7
bed broadPeak
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
575
Homo sapiens
Biosample type
326
tissue
205
primary cell
45
cell line
Organ
576
pancreas
506
connective tissue
412
adipose tissue
292
epithelium
227
kidney
216
liver
212
heart
147
bone element
88
vasculature
85
blood vessel
64
brain
62
artery
56
musculature of body
48
limb
28
eye
20
lung
18
ureter
15
embryo
8
blood
8
bodily fluid
7
nerve
5
vein
4
skeleton
4
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
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
454
AMP
103
HPAP
19
T1D
Genome assembly (visualization)
424
hg19
419
GRCh38
Lab
438
AMP-T2D consortium
103
Klaus Kaestner, Upenn
22
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
Audit category:
47
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
assay_title!
ATAC-seq
BIOSAMPLE
ASSAY
576 results
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total RNA-seq
single cell RNA-seq
WGBS
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
7
4
3
1
1
1
pancreas
2
2
4
1
2
1
1
1
body of pancreas
3
2
4
2
primary cell
pancreatic alpha cell
52
12
31
1
pancreatic beta cell
21
12
16
1
pancreatic acinar cell
4
12
1
pancreatic ductal cell
4
10
pancreatic delta cell
11
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cell line
EndoC_BH1
33
6
1
2
1
Panc1
1
1
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