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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
85
ChIP-seq
snATAC-seq
60
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
85
DNA binding
60
DNA accessibility
47
DNA methylation
4
3D chromatin structure
Target of assay
85
histone
85
histone modification
44
broad histone mark
41
narrow histone mark
Date released
153
May, 2021
113
May, 2022
97
February, 2023
59
September, 2020
47
September, 2023
45
May, 2020
18
February, 2021
9
April, 2020
7
August, 2020
March, 2020
5
March, 2023
3
October, 2022
Available data
191
bigWig
181
bam
142
fastq
132
zippedFastqFolder
102
tsv
85
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
552
Homo sapiens
Biosample type
473
primary cell
73
tissue
8
cell line
2
stem cell
Organ
169
pancreas
153
epithelium
47
kidney
9
lung
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
276
HPAP
219
T1D
47
KPMP
9
LungMap
4
community
1
ITG
Genome assembly (visualization)
192
GRCh38
184
hg19
Lab
276
Klaus Kaestner, Upenn
218
Kyle Gaulton, UCSD
47
KPMP
9
Xin Sun, UCSD
4
Anna Gloyn, Oxford
1
AMP-T2D consortium
1
ITG
Audit category:
6
inconsistent ontology term
3
audit script error
assay_title!
snATAC-seq
award.project!
AMP
month_released!
March, 2020
BIOSAMPLE
ASSAY
556 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
ATAC-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
pancreatic alpha cell
42
29
31
1
Langerhans cell
85
pancreatic beta cell
11
16
16
1
exocrine cell
39
+ See 36 more…
tissue
kidney
47
islet of Langerhans
5
11
lung
9
thymus
1
cell line
EndoC_BH1
1
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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