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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
141
single cell RNA-seq
99
total RNA-seq
68
snATAC-seq
60
ATAC-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
244
Transcription
128
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
99
February, 2023
59
September, 2020
47
September, 2023
39
February, 2021
19
April, 2020
17
May, 2021
8
January, 2021
7
August, 2020
5
March, 2023
3
October, 2022
2
March, 2020
Available data
169
fastq
153
zippedFastqFolder
108
bigWig
tsv
98
bam
4
hic
3
bedpe bed3+
3
cool
Organism
434
Homo sapiens
Biosample type
335
primary cell
95
tissue
7
cell line
2
stem cell
Organ
174
pancreas
146
epithelium
47
kidney
19
lung
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
318
HPAP
50
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
11
GRCh38
3
hg19
Lab
318
Klaus Kaestner, Upenn
48
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
4
Anna Gloyn, Oxford
2
AMP-T2D consortium
1
ITG
Audit category:
30
audit script error
1
inconsistent ontology term
award.project!
AMP
target.investigated_as!
histone modification
organ_slims!
blood
files.file_type!
tsv
BIOSAMPLE
ASSAY
439 results
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single cell RNA-seq
total RNA-seq
snATAC-seq
ATAC-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
85
48
pancreatic alpha cell
42
29
25
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
pancreatic acinar cell
4
1
+ See 16 more…
tissue
kidney
47
islet of Langerhans
7
6
11
lung
9
10
pancreas
4
thymus
1
cell line
EndoC_BH1
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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