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Embeddings type
Gene expression
3
Accessible chromatin
Embeddings Category
3
umap
Underlying Assay
2
10X snATAC-seq
1
sciATAC-seq
Available data
2
h5ad
2
mtx
2
tsv
1
bed bed3
1
cloupe
1
tbi
File set status
3
released
Genome assembly (visualization)
1
hg19
Organism
2
Homo sapiens
Biosample type
2
tissue
Biosample term
1
carotid canal
1
lung
1
tissues
Tissue term
1
carotid canal
1
lung
skeletal muscle tissue
1
tissues
Organ
1
bone element
1
lung
Date released
1
May, 2022
1
November, 2021
1
September, 2021
Software used
1
cellranger-atac
Lab
Kyle Gaulton, UCSD
1
AMP-T2D consortium
1
Bing Ren, UCSD
1
Xin Sun, UCSD
Project
1
AMP
1
ENCODE
1
LungMap
RFA
1
AMP
1
ENCODE3
1
LungMap2
tissue_term_name!
skeletal muscle tissue
embeddings_type!
Gene expression
lab.title!
Kyle Gaulton, UCSD
Showing 3 of 3 results
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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
DSR722OVR
released
Embeddings file set
: snATAC-seq on non-diseased lung tissue ~30-week-old gestational age, ~3-year-old and ~30-year-old
Lab:
Xin Sun, UCSD
Project:
LungMap