A Single-cell and Spatial RNA-seq Database for Alzheimer's Disease (ssREAD).

Autor:	Wang C; Department of Biomedical Informatics, The Ohio State University, OH 43210, USA., Acosta D; Department of Neuroscience, The Ohio State University, OH 43210, USA., McNutt M; Department of Biomedical Informatics, The Ohio State University, OH 43210, USA., Bian J; Department of Health Outcomes & Biomedical Informatics, University of Florida, FL 32606, USA., Ma A; Department of Biomedical Informatics, The Ohio State University, OH 43210, USA., Fu H; Department of Neuroscience, The Ohio State University, OH 43210, USA.; Chronic Brain Injury Program, The Ohio State University, OH 43210, USA., Ma Q; Department of Biomedical Informatics, The Ohio State University, OH 43210, USA.
Jazyk:	angličtina
Zdroj:	BioRxiv : the preprint server for biology [bioRxiv] 2024 Apr 22. Date of Electronic Publication: 2024 Apr 22.
DOI:	10.1101/2023.09.08.556944
Abstrakt:	Alzheimer's Disease (AD) pathology has been increasingly explored through single-cell and single-nucleus RNA-sequencing (scRNA-seq & snRNA-seq) and spatial transcriptomics (ST). However, the surge in data demands a comprehensive, user-friendly repository. Addressing this, we introduce a single-cell and spatial RNA-seq database for Alzheimer's disease (ssREAD). It offers a broader spectrum of AD-related datasets, an optimized analytical pipeline, and improved usability. The database encompasses 1,053 samples (277 integrated datasets) from 67 AD-related scRNA-seq & snRNA-seq studies, totaling 7,332,202 cells. Additionally, it archives 381 ST datasets from 18 human and mouse brain studies. Each dataset is annotated with details such as species, gender, brain region, disease/control status, age, and AD Braak stages. ssREAD also provides an analysis suite for cell clustering, identification of differentially expressed and spatially variable genes, cell-type-specific marker genes and regulons, and spot deconvolution for integrative analysis. ssREAD is freely available at https://bmblx.bmi.osumc.edu/ssread/. Competing Interests: Competing Interests Statement The authors declare no competing interests.
Databáze:	MEDLINE
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