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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
217
total RNA-seq
172
ChIP-seq
85
single cell RNA-seq
84
ATAC-seq
66
snATAC-seq
47
WGBS
17
pCHi-C
6
Hi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
HiChIP
1
whole genome sequencing assay
Assay category
302
Transcription
172
DNA binding
150
DNA accessibility
47
DNA methylation
6
3D chromatin structure
1
DNA sequencing
Target of assay
137
histone
137
histone modification
75
broad histone mark
62
narrow histone mark
23
transcription factor
12
control
6
RNA binding protein
Date released
235
May, 2021
158
May, 2022
97
February, 2023
59
September, 2020
45
February, 2021
45
May, 2020
36
August, 2021
16
January, 2021
7
August, 2020
3
October, 2022
2
March, 2019
Available data
244
bigWig
204
bam
193
fastq
153
zippedFastqFolder
146
bed narrowPeak
112
tsv
84
tagAlign
6
txt
5
bedpe bed3+
5
hic
3
cool
2
bed bed3+
1
bedpe
1
vcf
Organism
703
Homo sapiens
Biosample type
563
primary cell
56
tissue
47
in vitro differentiated cells
37
cell line
Organ
207
pancreas
152
epithelium
31
liver
8
blood
8
bodily fluid
2
kidney
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
324
HPAP
234
T1D
145
AMP
Genome assembly (visualization)
258
hg19
191
GRCh38
Lab
3912
AMP-T2D consortium
341
Kyle Gaulton, UCSD
324
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
6
inconsistent ontology term
assay_title!
HiChIP
BIOSAMPLE
ASSAY
703 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
whole genome sequencing assay
primary cell
monocyte
53
84
1
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
+ See 36 more…
tissue
islet of Langerhans
12
30
6
2
pancreas
1
4
thymus
1
in vitro differentiated cells
embryonic stem cell
5
37
5
cell line
HepG2
9
18
1
2
1
EndoC_BH1
3
HEK293T
2
Synthesized DNA
1
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