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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
39
snATAC-seq
20
ChIP-seq
16
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
20
DNA binding
3
3D chromatin structure
Target of assay
histone
134
histone modification
74
broad histone mark
60
narrow histone mark
12
transcription factor
8
control
5
RNA binding protein
Date released
134
May, 2022
100
May, 2021
45
May, 2020
23
February, 2023
18
September, 2020
16
January, 2021
3
October, 2022
Available data
fastq
153
zippedFastqFolder
120
bam
116
bigWig
102
tsv
18
bed narrowPeak
6
txt
3
bedpe bed3+
3
cool
3
hic
2
bed bed3+
Organism
339
Homo sapiens
Biosample type
279
primary cell
28
tissue
27
in vitro differentiated cells
5
cell line
Organ
110
pancreas
83
epithelium
8
blood
8
bodily fluid
1
bone element
bone marrow
1
connective tissue
1
thymus
Project
155
HPAP
151
T1D
33
AMP
Genome assembly (visualization)
109
hg19
96
GRCh38
Lab
2134
AMP-T2D consortium
184
Kyle Gaulton, UCSD
155
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
35
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
7
Struan F.A. Grant, CHOP
5
Patrick T. Ellinor, Broad
4
Anna Gloyn, Oxford
1
ITG
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
5
inconsistent ontology term
3
audit script error
files.file_type!
fastq
organ_slims!
bone marrow
target.investigated_as!
histone
BIOSAMPLE
ASSAY
339 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
WGBS
snATAC-seq
ChIP-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 34 more…
tissue
islet of Langerhans
5
11
6
pancreas
1
4
thymus
1
in vitro differentiated cells
embryonic stem cell
5
5
17
cell line
EndoC_BH1
3
2
See all biosamples
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