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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
154
ChIP-seq
45
snATAC-seq
44
ATAC-seq
33
single cell RNA-seq
17
pCHi-C
6
WGBS
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
HiChIP
Assay category
240
Transcription
154
DNA binding
89
DNA accessibility
6
DNA methylation
3
3D chromatin structure
Target of assay
134
histone
134
histone modification
74
broad histone mark
60
narrow histone mark
12
transcription factor
8
control
5
RNA binding protein
Date released
235
May, 2021
97
February, 2023
45
February, 2021
45
May, 2020
40
September, 2020
24
May, 2022
16
January, 2021
7
August, 2020
3
October, 2022
Available data
230
bigWig
204
bam
193
fastq
zippedFastqFolder
132
bed narrowPeak
102
tsv
84
tagAlign
6
txt
3
bedpe bed3+
3
cool
3
hic
2
bed bed3+
Organism
512
Homo sapiens
Biosample type
410
primary cell
52
tissue
47
in vitro differentiated cells
3
cell line
Organ
123
pancreas
72
epithelium
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
234
T1D
171
HPAP
107
AMP
Genome assembly (visualization)
241
hg19
190
GRCh38
Lab
3912
AMP-T2D consortium
341
Kyle Gaulton, UCSD
171
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
5
inconsistent ontology term
assay_title!
HiChIP
files.file_type!
zippedFastqFolder
BIOSAMPLE
ASSAY
512 results
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total RNA-seq
ChIP-seq
snATAC-seq
ATAC-seq
single cell RNA-seq
pCHi-C
WGBS
CRISPR genome editing followed by DNA sequencing
Hi-C
primary cell
monocyte
53
84
1
Langerhans cell
27
33
pancreatic alpha cell
42
7
6
1
exocrine cell
39
CD8-positive, alpha-beta T cell
4
33
1
+ See 36 more…
tissue
islet of Langerhans
11
6
29
pancreas
1
4
thymus
1
in vitro differentiated cells
embryonic stem cell
5
37
5
cell line
EndoC_BH1
3
See all biosamples
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