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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
197
total RNA-seq
129
single cell RNA-seq
88
ChIP-seq
60
ATAC-seq
49
snATAC-seq
41
WGBS
17
pCHi-C
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
330
Transcription
109
DNA accessibility
88
DNA binding
41
DNA methylation
Target of assay
88
histone
88
histone modification
44
broad histone mark
44
narrow histone mark
Date released
153
May, 2021
134
May, 2022
99
February, 2023
59
September, 2020
47
September, 2023
February, 2021
45
May, 2020
19
April, 2020
16
January, 2021
7
August, 2020
7
March, 2020
4
March, 2023
Available data
196
bigWig
186
bam
153
zippedFastqFolder
124
fastq
98
tsv
88
bed narrowPeak
84
tagAlign
Organism
585
Homo sapiens
Biosample type
480
primary cell
97
tissue
11
cell line
2
stem cell
Organ
177
pancreas
147
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
276
HPAP
244
T1D
47
KPMP
19
LungMap
4
community
Genome assembly (visualization)
196
GRCh38
186
hg19
Lab
276
Klaus Kaestner, Upenn
236
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
8
AMP-T2D consortium
4
Anna Gloyn, Oxford
Audit category:
9
inconsistent ontology term
assay_title!
Hi-C
award.project!
AMP
lab.title!
Bing Ren, UCSD
month_released!
February, 2021
BIOSAMPLE
ASSAY
590 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
WGBS
pCHi-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
25
Langerhans cell
73
21
pancreatic beta cell
11
16
16
exocrine cell
39
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tissue
kidney
47
islet of Langerhans
7
2
11
6
lung
9
10
pancreas
4
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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