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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
181
total RNA-seq
101
single cell RNA-seq
88
ChIP-seq
60
snATAC-seq
57
ATAC-seq
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
286
Transcription
117
DNA accessibility
88
DNA binding
4
3D chromatin structure
Target of assay
88
histone
88
histone modification
44
broad histone mark
44
narrow histone mark
Date released
153
May, 2021
99
February, 2023
93
May, 2022
September, 2020
47
September, 2023
45
May, 2020
39
February, 2021
19
April, 2020
January, 2021
7
August, 2020
7
March, 2020
5
March, 2023
3
October, 2022
Available data
193
bigWig
186
bam
122
fastq
98
tsv
93
zippedFastqFolder
88
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
512
Homo sapiens
Biosample type
415
primary cell
89
tissue
11
cell line
2
stem cell
Organ
112
pancreas
90
epithelium
47
kidney
19
lung
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
228
T1D
218
HPAP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
194
GRCh38
189
hg19
Lab
220
Kyle Gaulton, UCSD
218
Klaus Kaestner, Upenn
47
KPMP
19
Xin Sun, UCSD
8
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
9
inconsistent ontology term
award.project!
AMP
month_released!
January, 2021
September, 2020
assay_title!
WGBS
BIOSAMPLE
ASSAY
517 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
ATAC-seq
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
monocyte
53
84
1
Langerhans cell
45
48
pancreatic alpha cell
27
27
1
exocrine cell
39
pancreatic beta cell
10
15
1
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tissue
kidney
47
islet of Langerhans
7
2
2
11
lung
9
10
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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