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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
102
total RNA-seq
85
single cell RNA-seq
50
ATAC-seq
48
snATAC-seq
47
WGBS
17
ChIP-seq
6
Hi-C
5
STARR-seq
1
whole genome sequencing assay
Assay category
187
Transcription
98
DNA accessibility
47
DNA methylation
17
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
broad histone mark
Date released
134
May, 2022
76
February, 2023
59
September, 2020
45
February, 2021
35
August, 2021
7
August, 2020
3
October, 2022
2
March, 2019
Available data
169
fastq
153
zippedFastqFolder
23
bigWig
16
tsv
13
bed narrowPeak
5
bedpe bed3+
5
hic
3
cool
1
bedpe
1
vcf
Organism
361
Homo sapiens
Biosample type
324
primary cell
33
cell line
4
tissue
Organ
156
pancreas
152
epithelium
30
liver
2
kidney
Project
324
HPAP
37
AMP
Genome assembly (visualization)
19
hg19
11
GRCh38
Lab
3506
AMP-T2D consortium
324
Klaus Kaestner, Upenn
269
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
37
Bing Ren, UCSD
20
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
7
Struan F.A. Grant, CHOP
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
lab.title!
Anna Gloyn, Oxford
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
361 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
31
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
pancreatic acinar cell
4
1
cell line
HepG2
9
17
1
2
1
HEK293T
2
Synthesized DNA
1
tissue
islet of Langerhans
1
1
2
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