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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
271
total RNA-seq
177
ATAC-seq
ChIP-seq
152
single cell RNA-seq
82
snATAC-seq
47
WGBS
17
pCHi-C
10
MeRIP-seq
5
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
427
Transcription
259
DNA accessibility
47
DNA methylation
5
3D chromatin structure
Target of assay
5
control
5
nucleotide modification
Date released
198
May, 2022
128
August, 2021
99
February, 2023
71
May, 2021
59
September, 2020
47
September, 2023
45
February, 2021
45
May, 2020
19
April, 2020
16
January, 2021
14
May, 2023
10
November, 2020
7
August, 2020
5
March, 2023
3
March, 2019
3
October, 2022
1
October, 2017
Available data
195
fastq
153
zippedFastqFolder
129
bigWig
121
bam
102
bed narrowPeak
102
tsv
64
xls
63
txt
5
hic
3
bedpe bed3+
3
cool
2
bed bed3+
2
bed broadPeak
Organism
765
Homo sapiens
Biosample type
447
primary cell
308
tissue
in vitro differentiated cells
13
cell line
2
stem cell
Organ
217
pancreas
189
kidney
158
epithelium
40
liver
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
324
HPAP
223
AMP
152
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
184
GRCh38
142
hg19
Lab
AMP-T2D consortium
324
Klaus Kaestner, Upenn
179
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
30
audit script error
11
inconsistent ontology term
assay_title!
ChIP-seq
biosample_type!
in vitro differentiated cells
lab.title!
AMP-T2D consortium
Bing Ren, UCSD
BIOSAMPLE
ASSAY
770 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
MeRIP-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
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
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tissue
kidney
49
75
58
6
1
islet of Langerhans
11
33
6
4
liver
20
20
lung
9
10
pancreas
1
4
+ See 1 more…
cell line
EndoC_BH1
6
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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