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Embeddings type
  • Gene expression
  • 4Accessible chromatin
Cohort
  • 1HPAP
Embeddings Category
  • 4umap
Underlying Assay
  • 210X snATAC-seq
  • 110X scATAC-seq
  • 1sciATAC-seq
Available data
  • 2h5ad
  • 2mtx
  • 2tsv
  • 1bed bed3
  • 1cloupe
  • 1rds
  • 1tbi
File set status
  • 4released
Genome assembly (visualization)
  • 1hg19
Organism
  • 4Homo sapiens
Biosample type
  • 4tissue
Biosample term
  • 2islet of Langerhans
  • 1carotid canal
  • 1skeletal muscle tissue
Tissue term
  • 2pancreas
  • 1carotid canal
  • 1skeletal muscle tissue
Organ
  • 2pancreas
  • 1bone element
  • 1musculature of body
Date released
  • 2May, 2022
  • 1February, 2021
  • 1March, 2024
Software used
  • 1cellranger-atac
Lab
  • 2AMP-T2D consortium
  • 2Kyle Gaulton, UCSD
Project
  • 4AMP
RFA
  • 4AMP
  • 1AMP2
  • 1ENCODE3
  • 1LungMap2
  • 1T1D
  • 1community
embeddings_type!
  • Gene expression

Showing 4 of 4 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

    DSR322WJB

    released

    Embeddings file set: Islet snATAC-seq from control samples
    Lab: Kyle Gaulton, UCSD
    Project: AMP
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