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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
76
snATAC-seq
ATAC-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
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
338
Transcription
84
DNA binding
76
DNA accessibility
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
95
May, 2022
88
February, 2023
56
September, 2020
47
September, 2023
45
February, 2021
45
May, 2020
19
April, 2020
16
January, 2021
5
March, 2023
3
October, 2022
Available data
180
bam
180
bigWig
159
fastq
114
zippedFastqFolder
102
tsv
84
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
566
Homo sapiens
Biosample type
480
primary cell
82
tissue
7
cell line
2
stem cell
Organ
118
pancreas
103
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
275
HPAP
225
T1D
AMP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
183
hg19
181
GRCh38
Lab
275
Klaus Kaestner, Upenn
225
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
5
inconsistent ontology term
lab.title!
AMP-T2D consortium
award.project!
AMP
assay_title!
ATAC-seq
BIOSAMPLE
ASSAY
571 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
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
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 37 more…
tissue
kidney
47
lung
9
10
islet of Langerhans
5
6
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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