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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
141
single cell RNA-seq
76
snATAC-seq
60
ATAC-seq
44
ChIP-seq
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
342
Transcription
136
DNA accessibility
DNA methylation
44
DNA binding
4
3D chromatin structure
Target of assay
88
histone
88
histone modification
broad histone mark
44
narrow histone mark
Date released
109
May, 2021
99
February, 2023
93
May, 2022
59
September, 2020
47
September, 2023
45
May, 2020
39
February, 2021
19
April, 2020
16
January, 2021
7
August, 2020
7
March, 2020
5
March, 2023
3
October, 2022
Available data
163
fastq
152
bigWig
142
bam
112
zippedFastqFolder
98
tsv
44
bed narrowPeak
40
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
543
Homo sapiens
Biosample type
438
primary cell
97
tissue
11
cell line
2
stem cell
Organ
139
pancreas
109
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
277
HPAP
200
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
153
GRCh38
145
hg19
Lab
277
Klaus Kaestner, Upenn
192
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
8
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
9
inconsistent ontology term
assay_slims!
DNA methylation
award.project!
AMP
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
548 results
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total RNA-seq
single cell RNA-seq
snATAC-seq
ATAC-seq
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
monocyte
53
40
1
pancreatic alpha cell
42
29
1
exocrine cell
39
pancreatic beta cell
11
16
1
+ See 37 more…
tissue
kidney
47
islet of Langerhans
7
6
11
2
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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