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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
193
total RNA-seq
141
single cell RNA-seq
84
ChIP-seq
60
ATAC-seq
60
snATAC-seq
47
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
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
337
Transcription
120
DNA accessibility
84
DNA binding
47
DNA methylation
4
3D chromatin structure
Target of assay
84
histone
84
histone modification
44
broad histone mark
40
narrow histone mark
Date released
152
May, 2021
134
May, 2022
99
February, 2023
59
September, 2020
47
September, 2023
45
February, 2021
45
May, 2020
19
April, 2020
January, 2021
7
August, 2020
4
March, 2023
3
October, 2022
Available data
190
bigWig
180
bam
169
fastq
153
zippedFastqFolder
102
tsv
84
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
610
Homo sapiens
Biosample type
521
primary cell
85
tissue
6
cell line
2
stem cell
Organ
170
pancreas
152
epithelium
47
kidney
19
lung
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
324
HPAP
220
T1D
47
KPMP
19
LungMap
3
community
1
ITG
Genome assembly (visualization)
191
GRCh38
183
hg19
Lab
324
Klaus Kaestner, Upenn
220
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
AMP-T2D consortium
3
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
5
inconsistent ontology term
assay_title!
shRNA RNA-seq
award.project!
AMP
lab.title!
AMP-T2D consortium
month_released!
January, 2021
BIOSAMPLE
ASSAY
614 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
CRISPR genome editing followed by DNA sequencing
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
siRNA RNA-seq
primary cell
monocyte
53
84
1
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
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tissue
kidney
47
lung
9
10
islet of Langerhans
5
11
2
thymus
1
cell line
EndoC_BH1
3
2
EndoC-BH1
1
stem cell
SB Ad3.1
1
1
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