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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
70
ChIP-seq
66
snATAC-seq
47
WGBS
16
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
Assay category
292
Transcription
149
DNA accessibility
70
DNA binding
47
DNA methylation
3
3D chromatin structure
Target of assay
50
histone
50
histone modification
30
broad histone mark
20
narrow histone mark
12
transcription factor
8
control
5
RNA binding protein
Date released
158
May, 2022
150
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
230
bigWig
204
bam
193
fastq
153
zippedFastqFolder
132
bed narrowPeak
102
tsv
tagAlign
6
txt
3
bedpe bed3+
3
cool
3
hic
2
bed bed3+
Organism
582
Homo sapiens
Biosample type
478
primary cell
52
tissue
47
in vitro differentiated cells
5
cell line
Organ
203
pancreas
152
epithelium
8
blood
8
bodily fluid
1
bone element
bone marrow
1
connective tissue
1
thymus
Project
324
HPAP
151
T1D
107
AMP
Genome assembly (visualization)
157
hg19
106
GRCh38
Lab
3598
AMP-T2D consortium
324
Klaus Kaestner, Upenn
258
Kyle Gaulton, UCSD
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
5
inconsistent ontology term
files.file_type!
tagAlign
organ_slims!
bone marrow
BIOSAMPLE
ASSAY
582 results
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total RNA-seq
single cell RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
WGBS
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 35 more…
tissue
islet of Langerhans
11
29
6
pancreas
1
4
thymus
1
in vitro differentiated cells
embryonic stem cell
5
5
37
cell line
EndoC_BH1
3
2
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