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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
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
342
Transcription
136
DNA accessibility
47
DNA methylation
4
3D chromatin structure
Target of assay
88
histone
histone modification
44
broad histone mark
narrow histone mark
Date released
134
May, 2022
99
February, 2023
68
May, 2021
59
September, 2020
47
September, 2023
45
February, 2021
45
May, 2020
19
April, 2020
16
January, 2021
7
August, 2020
5
March, 2023
4
March, 2020
3
October, 2022
Available data
169
fastq
153
zippedFastqFolder
108
bigWig
104
tsv
98
bam
4
hic
3
bedpe bed3+
3
cool
Organism
546
Homo sapiens
Biosample type
445
primary cell
95
tissue
9
cell line
2
stem cell
Organ
182
pancreas
154
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
324
HPAP
156
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
109
GRCh38
101
hg19
Lab
324
Klaus Kaestner, Upenn
152
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
4
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
7
inconsistent ontology term
target.investigated_as!
histone modification
narrow histone mark
organ_slims!
stomach
award.project!
AMP
BIOSAMPLE
ASSAY
551 results
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total RNA-seq
single cell RNA-seq
snATAC-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
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
1
monocyte
53
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
+ See 37 more…
tissue
kidney
47
islet of Langerhans
7
6
11
lung
9
10
pancreas
4
thymus
1
cell line
EndoC_BH1
2
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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