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Citing CMDGA
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Embeddings type
34
Gene expression
5
Accessible chromatin
Cohort
1
HPAP
Embeddings Category
5
umap
Underlying Assay
3
10X snATAC-seq
1
10X scATAC-seq
1
sciATAC-seq
Available data
3
h5ad
3
mtx
3
tsv
1
bed bed3
1
cloupe
1
rds
1
tbi
File set status
5
released
Genome assembly (visualization)
1
hg19
Organism
4
Homo sapiens
Biosample type
4
tissue
1
primary cell
Biosample term
2
islet of Langerhans
1
carotid canal
lung
1
pancreas
1
peripheral blood mononuclear cell
1
skeletal muscle tissue
1
tissues
Tissue term
2
pancreas
1
blood
1
carotid canal
1
skeletal muscle tissue
1
tissues
Organ
2
pancreas
1
blood
1
bodily fluid
1
bone element
1
musculature of body
Date released
2
May, 2022
1
August, 2021
February, 2021
1
March, 2024
1
November, 2021
Software used
1
cellranger-atac
Lab
2
AMP-T2D consortium
2
Kyle Gaulton, UCSD
1
Bing Ren, UCSD
Project
3
AMP
1
ENCODE
1
T1D
RFA
3
AMP
1
ENCODE3
1
T1D
month_released!
February, 2021
biosample_term_name!
lung
Showing 5 of 5 results
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FileSet
DSR827MAZ
released
Embeddings file set
: Reference map of islet cell type-specific chromatin accessibility from 97,659 cells derived from single cell ATAC-seq assays of 41 non-diabetic, T1D autoantibody positive (Aab+), T1D, and T2D donors from the Human Pancreas Analysis Program
Lab:
Kyle Gaulton, UCSD
Project:
AMP
FileSet
DSR384UWH
released
Embeddings file set
: Clustering of snATAC-seq accessible chromatin profiles from 4,926 cells from human skeletal muscle tissue
Lab:
AMP-T2D consortium
Project:
AMP
FileSet
DSR132DPW
released
Embeddings file set
: Single-cell ATAC-Seq data from human atherosclerosis. The files contain cells from endarterectomy samples from three donors, yielding approximately 7000 cells total. snATAC-Seq libraries were generated using the 10x Genomics scATAC-Seq v1 kit.
Lab:
AMP-T2D consortium
Project:
AMP
FileSet
DSR838CLG
released
Embeddings file set
: snATAC embedding for raw TN5 insertion counts for each promoter region and cCRE in each cell for multiple tissues
Lab:
Bing Ren, UCSD
Project:
ENCODE
FileSet
DSR047LET
released
Embeddings file set
: Clustering of accessible chromatin profiles from 131,554 cells from single cell experiments of peripheral blood mononuclear cells, whole pancreas tissue, and purified pancreatic islets
Lab:
Kyle Gaulton, UCSD
Project:
T1D