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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
171
total RNA-seq
152
single cell RNA-seq
149
ATAC-seq
64
snATAC-seq
47
WGBS
18
ChIP-seq
10
MeRIP-seq
8
Hi-C
5
STARR-seq
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
327
Transcription
213
DNA accessibility
47
DNA methylation
18
DNA binding
8
3D chromatin structure
1
DNA sequencing
Target of assay
11
transcription factor
9
control
5
nucleotide modification
3
histone
3
histone modification
2
narrow histone mark
1
RNA binding protein
1
broad histone mark
Date released
174
May, 2022
164
August, 2021
76
February, 2023
59
September, 2020
47
September, 2023
45
February, 2021
19
April, 2020
14
May, 2023
10
November, 2020
7
August, 2020
5
March, 2019
5
March, 2023
3
October, 2022
1
October, 2017
Available data
171
fastq
153
zippedFastqFolder
98
bed narrowPeak
64
xls
57
txt
45
bigWig
16
tsv
7
hic
5
bedpe bed3+
3
cool
2
bed broadPeak
1
bam
1
bedpe
1
vcf
Organism
624
Homo sapiens
Biosample type
325
primary cell
260
tissue
42
cell line
2
stem cell
Organ
191
kidney
170
pancreas
158
epithelium
71
liver
19
lung
Project
324
HPAP
234
AMP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
89
GRCh38
43
hg19
Lab
AMP-T2D consortium
Kyle Gaulton, UCSD
324
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
38
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
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
7
inconsistent ontology term
lab.title!
AMP-T2D consortium
Struan F.A. Grant, CHOP
Kyle Gaulton, UCSD
BIOSAMPLE
ASSAY
629 results
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total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
ChIP-seq
MeRIP-seq
Hi-C
STARR-seq
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
pancreatic acinar cell
4
1
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tissue
kidney
49
58
75
6
1
liver
20
20
lung
9
10
islet of Langerhans
1
5
4
2
cell line
HepG2
9
18
1
2
1
EndoC_BH1
6
EndoC-BH1
1
1
HEK293T
2
Synthesized DNA
1
stem cell
SB Ad3.1
1
1
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