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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
109
total RNA-seq
55
ATAC-seq
51
single cell RNA-seq
41
WGBS
40
ChIP-seq
39
snATAC-seq
17
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
Assay category
160
Transcription
94
DNA accessibility
41
DNA methylation
40
DNA binding
3
3D chromatin structure
Target of assay
20
histone
20
histone modification
12
transcription factor
10
broad histone mark
10
narrow histone mark
8
control
5
RNA binding protein
Date released
134
May, 2022
121
May, 2021
45
May, 2020
23
February, 2023
18
September, 2020
16
January, 2021
3
October, 2022
Available data
230
bigWig
204
bam
fastq
153
zippedFastqFolder
bed narrowPeak
102
tsv
84
tagAlign
6
txt
3
bedpe bed3+
3
cool
3
hic
2
bed bed3+
Organism
360
Homo sapiens
Biosample type
280
primary cell
47
in vitro differentiated cells
28
tissue
5
cell line
Organ
110
pancreas
83
epithelium
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
155
HPAP
152
T1D
53
AMP
Genome assembly (visualization)
109
hg19
96
GRCh38
Lab
1888
AMP-T2D consortium
205
Kyle Gaulton, UCSD
155
Klaus Kaestner, Upenn
78
Katalin Susztak, Upenn
47
KPMP
24
Bing Ren, UCSD
20
Karen Mohlke, UNC
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Anna Gloyn, Oxford
3
Struan F.A. Grant, CHOP
1
ITG
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
5
inconsistent ontology term
3
audit script error
files.file_type!
bed narrowPeak
fastq
BIOSAMPLE
ASSAY
360 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
WGBS
ChIP-seq
snATAC-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
primary cell
Langerhans cell
51
21
monocyte
53
1
pancreatic alpha cell
22
25
1
pancreatic beta cell
13
16
1
CD8-positive, alpha-beta T cell
4
3
1
+ See 35 more…
in vitro differentiated cells
embryonic stem cell
5
5
37
tissue
islet of Langerhans
5
11
6
pancreas
1
4
thymus
1
cell line
EndoC_BH1
3
2
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