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Embeddings type
Gene expression
7
Accessible chromatin
Embeddings Category
7
umap
Underlying Assay
5
10X snATAC-seq
2
sciATAC-seq
Available data
6
h5ad
4
mtx
3
tsv
rds
1
bed bed3
1
cloupe
1
tbi
File set status
7
released
Genome assembly (visualization)
1
hg19
Organism
5
Homo sapiens
Biosample type
6
tissue
1
primary cell
Biosample term
3
islet of Langerhans
1
carotid canal
1
lung
1
pancreas
1
peripheral blood mononuclear cell
1
skeletal muscle tissue
1
tissues
Tissue term
3
pancreas
1
blood
1
carotid canal
1
lung
1
skeletal muscle tissue
1
tissues
Organ
3
pancreas
1
blood
1
bodily fluid
1
bone element
1
lung
1
musculature of body
Date released
2
May, 2022
1
August, 2021
1
February, 2021
1
November, 2021
1
October, 2024
1
September, 2021
Software used
1
cellranger-atac
Lab
2
AMP-T2D consortium
2
Kyle Gaulton, UCSD
1
Bing Ren, UCSD
1
Franck Mauvais-Jarvis Lab
1
Xin Sun, UCSD
Project
3
AMP
1
ENCODE
1
LungMap
1
T1D
1
community
RFA
3
AMP
1
ENCODE3
1
LungMap2
1
T1D
1
community
embeddings_type!
Gene expression
files.file_type!
rds
Showing 7 of 7 results
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FileSet
DSR662TAR
released
Embeddings file set
: Single nucleus ATAC-seq data in human pancreatic islets for 15 donor
Lab:
Franck Mauvais-Jarvis Lab
Project:
community
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
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
FileSet
DSR322WJB
released
Embeddings file set
: Islet snATAC-seq from control samples
Lab:
Kyle Gaulton, UCSD
Project:
AMP
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