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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
92
total RNA-seq
85
single cell RNA-seq
50
ATAC-seq
48
snATAC-seq
41
WGBS
18
ChIP-seq
6
Hi-C
5
STARR-seq
1
whole genome sequencing assay
Assay category
177
Transcription
98
DNA accessibility
41
DNA methylation
18
DNA binding
6
3D chromatin structure
1
DNA sequencing
Target of assay
11
transcription factor
4
control
3
histone
3
histone modification
2
narrow histone mark
1
RNA binding protein
1
broad histone mark
Date released
134
May, 2022
76
February, 2023
59
September, 2020
39
February, 2021
26
August, 2021
7
August, 2020
3
October, 2022
2
March, 2019
Available data
169
fastq
153
zippedFastqFolder
24
bigWig
tsv
14
bed narrowPeak
5
bedpe bed3+
5
hic
3
cool
1
bedpe
1
vcf
Organism
346
Homo sapiens
Biosample type
318
primary cell
25
cell line
3
tissue
Organ
149
pancreas
146
epithelium
22
liver
2
kidney
Project
318
HPAP
28
AMP
Genome assembly (visualization)
20
hg19
11
GRCh38
Lab
2424
AMP-T2D consortium
318
Klaus Kaestner, Upenn
247
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
7
Struan F.A. Grant, CHOP
4
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
30
audit script error
1
inconsistent ontology term
files.file_type!
tsv
BIOSAMPLE
ASSAY
346 results
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total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
ChIP-seq
Hi-C
STARR-seq
whole genome sequencing assay
primary cell
Langerhans cell
85
48
pancreatic alpha cell
42
29
25
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
pancreatic acinar cell
4
1
cell line
HepG2
18
1
2
1
HEK293T
2
Synthesized DNA
1
tissue
islet of Langerhans
1
2
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