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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
89
single cell RNA-seq
86
ChIP-seq
55
snATAC-seq
21
ATAC-seq
16
pCHi-C
6
WGBS
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
284
Transcription
86
DNA binding
76
DNA accessibility
6
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
99
February, 2023
47
September, 2023
45
February, 2021
41
May, 2020
40
September, 2020
19
April, 2020
16
January, 2021
7
August, 2020
5
March, 2023
4
March, 2020
3
October, 2022
Available data
188
bigWig
178
bam
169
fastq
zippedFastqFolder
98
tsv
86
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
472
Homo sapiens
Biosample type
371
primary cell
97
tissue
7
cell line
2
stem cell
Organ
102
pancreas
72
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
235
T1D
171
HPAP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
189
GRCh38
181
hg19
Lab
231
Kyle Gaulton, UCSD
171
Klaus Kaestner, Upenn
47
KPMP
19
Xin Sun, UCSD
4
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
inconsistent ontology term
assay_slims!
DNA sequencing
audit.ERROR.category!
inconsistent ontology term
award.project!
AMP
files.file_type!
zippedFastqFolder
BIOSAMPLE
ASSAY
477 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
ATAC-seq
pCHi-C
WGBS
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
33
27
pancreatic alpha cell
42
7
6
1
exocrine cell
39
pancreatic beta cell
11
3
1
+ See 35 more…
tissue
kidney
47
islet of Langerhans
7
2
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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