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Schema
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
snATAC-seq
60
ATAC-seq
47
WGBS
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
342
Transcription
60
DNA accessibility
47
DNA methylation
4
3D chromatin structure
Target of assay
88
histone
histone modification
44
broad histone mark
44
narrow histone mark
Date released
113
May, 2022
97
February, 2023
67
May, 2021
59
September, 2020
47
September, 2023
45
May, 2020
18
February, 2021
9
April, 2020
7
August, 2020
5
March, 2023
4
March, 2020
3
October, 2022
Available data
142
fastq
132
zippedFastqFolder
108
bigWig
104
tsv
98
bam
4
hic
3
bedpe bed3+
3
cool
Organism
470
Homo sapiens
Biosample type
388
primary cell
75
tissue
9
cell line
2
stem cell
Organ
172
pancreas
154
epithelium
47
kidney
9
lung
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
276
HPAP
137
T1D
47
KPMP
9
LungMap
4
community
1
ITG
Genome assembly (visualization)
109
GRCh38
101
hg19
Lab
276
Klaus Kaestner, Upenn
133
Kyle Gaulton, UCSD
47
KPMP
9
Xin Sun, UCSD
4
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
7
inconsistent ontology term
3
audit script error
organ_slims!
bone element
target.investigated_as!
histone modification
award.project!
AMP
assay_title!
snATAC-seq
BIOSAMPLE
ASSAY
474 results
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total RNA-seq
single cell RNA-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
pancreatic alpha cell
42
29
31
1
Langerhans cell
85
monocyte
53
1
pancreatic beta cell
11
16
16
1
exocrine cell
39
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tissue
kidney
47
islet of Langerhans
7
11
lung
9
thymus
1
cell line
EndoC_BH1
2
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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