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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
66
snATAC-seq
60
ATAC-seq
47
WGBS
42
ChIP-seq
16
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
327
Transcription
126
DNA accessibility
47
DNA methylation
42
DNA binding
4
3D chromatin structure
Target of assay
86
histone
86
histone modification
broad histone mark
42
narrow histone mark
Date released
134
May, 2022
107
May, 2021
99
February, 2023
59
September, 2020
47
September, 2023
45
February, 2021
41
May, 2020
April, 2020
16
January, 2021
7
August, 2020
5
March, 2023
4
March, 2020
3
October, 2022
Available data
169
fastq
153
zippedFastqFolder
144
bigWig
134
bam
98
tsv
42
bed narrowPeak
40
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
563
Homo sapiens
Biosample type
480
primary cell
78
tissue
7
cell line
2
stem cell
Organ
182
pancreas
152
epithelium
47
kidney
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
324
HPAP
191
T1D
47
KPMP
4
community
1
ITG
Genome assembly (visualization)
145
GRCh38
137
hg19
Lab
324
Klaus Kaestner, Upenn
187
Kyle Gaulton, UCSD
47
KPMP
4
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
inconsistent ontology term
month_released!
April, 2020
award.project!
AMP
audit.ERROR.category!
inconsistent ontology term
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
567 results
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total RNA-seq
single cell RNA-seq
snATAC-seq
ATAC-seq
WGBS
ChIP-seq
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
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
1
monocyte
53
40
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
+ See 35 more…
tissue
kidney
47
islet of Langerhans
7
6
11
2
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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