Year: 2026
Type: article
Abstract: Single cell assay for transposase-accessible chromatin using sequencing (scATAC-seq) is a technology that allows for analysis of chromatin accessibility at a single cell resolution. scATAC-seq is advancing our understanding of gene regulation, and has found many applications in cell development and disease. Despite the availability of several scATAC-seq datasets and their high applicability, we still lack a definitive scATAC-seq database, where a comprehensive collection of publicly available scATAC-seq datasets has been made available in a consistent format. To solve this, we have created scATAC.Explorer, an R accessible database and search tool, containing a curated collection of 39 currently available scATAC-seq datasets from a wide array of tissues and cell types. scATAC.Explorer allows fast query and retrieval of publicly available scATAC-seq datasets, and it contains accessibility matrices, cell type annotations and other metadata information for each dataset. scATAC.Explorer is available both in GitHub and as an R Bioconductor package, and can easily be integrated into existing R and Python analysis pipelines, allowing researchers to quickly analyze scATAC-seq data from multiple sources.
Source: Scientific Reports
Authors: Arrian Gibson-Khademi, Jonathan Wang, Erik Christensen, Parisa Shooshtari
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: gold
Estimated APC paid: $2,690
Funders: Children's Health Research Institute, Lawson Health Research Institute, Government of Canada, Alliance de recherche numérique du Canada, Schulich School of Medicine and Dentistry, Western University, Natural Sciences and Engineering Research Council of Canada, Schulich School of Medicine and Dentistry
OpenAlex ID: W7124435777