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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
207
total RNA-seq
85
single cell RNA-seq
83
ATAC-seq
66
snATAC-seq
47
WGBS
20
ChIP-seq
17
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
Assay category
292
Transcription
149
DNA accessibility
47
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
158
May, 2022
101
May, 2021
99
February, 2023
59
September, 2020
45
February, 2021
45
May, 2020
16
January, 2021
7
August, 2020
3
October, 2022
Available data
193
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
533
Homo sapiens
Biosample type
449
primary cell
52
tissue
27
in vitro differentiated cells
5
cell line
Organ
203
pancreas
152
epithelium
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
324
HPAP
152
T1D
57
AMP
Genome assembly (visualization)
127
hg19
106
GRCh38
Lab
2813
AMP-T2D consortium
324
Klaus Kaestner, Upenn
209
Kyle Gaulton, UCSD
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
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
30
audit script error
5
inconsistent ontology term
files.file_type!
bigBed broadPeak
target.investigated_as!
histone
BIOSAMPLE
ASSAY
533 results
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total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
ChIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
primary cell
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
1
monocyte
53
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
+ See 36 more…
tissue
islet of Langerhans
11
29
6
pancreas
1
4
thymus
1
in vitro differentiated cells
embryonic stem cell
5
5
17
cell line
EndoC_BH1
3
2
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