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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
191
total RNA-seq
132
single cell RNA-seq
86
ChIP-seq
66
snATAC-seq
ATAC-seq
47
WGBS
16
pCHi-C
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
Assay category
323
Transcription
86
DNA binding
66
DNA accessibility
47
DNA methylation
4
3D chromatin structure
Target of assay
86
histone
86
histone modification
44
broad histone mark
42
narrow histone mark
Date released
151
May, 2021
95
May, 2022
88
February, 2023
56
September, 2020
47
September, 2023
45
February, 2021
41
May, 2020
16
January, 2021
4
March, 2020
3
October, 2022
1
March, 2023
Available data
178
bam
178
bigWig
159
fastq
114
zippedFastqFolder
98
tsv
86
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
547
Homo sapiens
Biosample type
475
primary cell
67
tissue
5
cell line
Organ
122
pancreas
103
epithelium
47
kidney
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
275
HPAP
224
T1D
47
KPMP
1
ITG
Genome assembly (visualization)
181
hg19
179
GRCh38
Lab
275
Klaus Kaestner, Upenn
220
Kyle Gaulton, UCSD
47
KPMP
Xin Sun, UCSD
4
AMP-T2D consortium
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
inconsistent ontology term
assay_title!
ATAC-seq
audit.ERROR.category!
inconsistent ontology term
award.project!
AMP
lab.title!
Anna Gloyn, Oxford
Xin Sun, UCSD
BIOSAMPLE
ASSAY
547 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
CRISPR genome editing followed by DNA sequencing
HiChIP
primary cell
monocyte
53
84
1
Langerhans cell
85
48
pancreatic alpha cell
42
31
1
exocrine cell
39
pancreatic beta cell
11
16
1
+ See 35 more…
tissue
kidney
47
islet of Langerhans
7
2
6
pancreas
4
thymus
1
cell line
EndoC_BH1
3
2
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