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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
18
ChIP-seq
6
Hi-C
5
STARR-seq
1
whole genome sequencing assay
Assay category
187
Transcription
98
DNA accessibility
47
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
45
February, 2021
36
August, 2021
7
August, 2020
3
October, 2022
2
March, 2019
Available data
169
fastq
153
zippedFastqFolder
24
bigWig
16
tsv
14
bed narrowPeak
5
bedpe bed3+
5
hic
3
cool
1
bedpe
1
vcf
Organism
362
Homo sapiens
Biosample type
324
primary cell
34
cell line
4
tissue
Organ
156
pancreas
152
epithelium
31
liver
2
kidney
Project
324
HPAP
38
AMP
Genome assembly (visualization)
20
hg19
11
GRCh38
Lab
3910
AMP-T2D consortium
343
Kyle Gaulton, UCSD
324
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
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!
tagAlign bed3+
organ_slims!
lymph node
BIOSAMPLE
ASSAY
362 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
18
1
2
1
HEK293T
2
Synthesized DNA
1
tissue
islet of Langerhans
1
1
2
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