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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
107
single cell RNA-seq
105
total RNA-seq
50
ATAC-seq
49
snATAC-seq
41
WGBS
17
pCHi-C
4
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
216
Transcription
99
DNA accessibility
41
DNA methylation
4
3D chromatin structure
Target of assay
88
histone
histone modification
44
broad histone mark
44
narrow histone mark
Date released
134
May, 2022
68
May, 2021
47
September, 2023
45
May, 2020
23
February, 2023
19
April, 2020
18
September, 2020
16
January, 2021
5
March, 2023
4
March, 2020
3
October, 2022
Available data
fastq
153
zippedFastqFolder
108
bigWig
104
tsv
98
bam
4
hic
3
bedpe bed3+
3
cool
Organism
377
Homo sapiens
Biosample type
276
primary cell
95
tissue
9
cell line
2
stem cell
Organ
113
pancreas
85
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
156
T1D
155
HPAP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
101
hg19
99
GRCh38
Lab
155
Klaus Kaestner, Upenn
152
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
4
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
7
inconsistent ontology term
3
audit script error
award.project!
AMP
target.investigated_as!
histone modification
files.file_type!
fastq
BIOSAMPLE
ASSAY
382 results
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single cell RNA-seq
total RNA-seq
ATAC-seq
snATAC-seq
WGBS
pCHi-C
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
51
21
monocyte
53
1
pancreatic alpha cell
22
25
1
pancreatic beta cell
13
16
1
peripheral blood mononuclear cell
8
+ See 36 more…
tissue
kidney
47
islet of Langerhans
7
11
6
lung
9
10
pancreas
4
thymus
1
cell line
EndoC_BH1
2
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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