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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
197
total RNA-seq
single cell RNA-seq
88
ChIP-seq
76
snATAC-seq
ATAC-seq
47
WGBS
17
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
Hi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
201
Transcription
88
DNA binding
76
DNA accessibility
47
DNA methylation
1
3D chromatin structure
Target of assay
88
histone
88
histone modification
44
broad histone mark
44
narrow histone mark
Date released
153
May, 2021
88
February, 2023
62
May, 2022
45
May, 2020
33
February, 2021
16
January, 2021
16
September, 2020
10
April, 2020
7
March, 2020
5
March, 2023
Available data
186
bam
186
bigWig
125
fastq
104
tsv
88
bed narrowPeak
84
tagAlign
62
zippedFastqFolder
4
hic
bedpe bed3+
3
cool
Organism
430
Homo sapiens
Biosample type
392
primary cell
30
tissue
11
cell line
2
stem cell
Organ
123
pancreas
104
epithelium
10
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
233
T1D
187
HPAP
10
LungMap
4
community
1
ITG
Genome assembly (visualization)
187
GRCh38
186
hg19
Lab
225
Kyle Gaulton, UCSD
187
Klaus Kaestner, Upenn
10
Xin Sun, UCSD
8
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
27
audit script error
9
inconsistent ontology term
assay_title!
ATAC-seq
single cell RNA-seq
award.project!
AMP
files.file_type!
bedpe bed3+
BIOSAMPLE
ASSAY
435 results
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total RNA-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
CRISPR genome editing followed by DNA sequencing
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
Hi-C
shRNA RNA-seq
siRNA RNA-seq
primary cell
monocyte
53
84
1
pancreatic alpha cell
42
31
Langerhans cell
48
exocrine cell
39
pancreatic beta cell
11
16
+ See 36 more…
tissue
islet of Langerhans
7
2
6
lung
10
pancreas
4
thymus
1
cell line
EndoC_BH1
2
2
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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