DRscDB: A single-cell RNA-seq resource for data mining and data comparison across species

Computational and Structural Biotechnology Journal

Yifang Liu¹  Corey Forman²  Gilberto dos Santos²  Sudhir Gopal Tattikota²  Jonathan Rodiger²  Irene Papatheodorou³  Yanhui Hu³  Norbert Perrimon³  Aram Comjean³  Stephanie E. Mohr³  Yue Gao³  Grace Kim³ 

[1] Corresponding authors at. Department of Genetics, Blavatnik Institute, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA.;Drosophila RNAi Screening Center, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA;Department of Genetics, Blavatnik Institute, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA;

关键词: single-cell RNA-seq;    Model organisms;    Data mining;    Cross-species analysis;   

DOI  :  

来源: DOAJ

【 摘 要 】

With the advent of single-cell RNA sequencing (scRNA-seq) technologies, there has been a spike in studies involving scRNA-seq of several tissues across diverse species including Drosophila. Although a few databases exist for users to query genes of interest within the scRNA-seq studies, search tools that enable users to find orthologous genes and their cell type-specific expression patterns across species are limited. Here, we built a new search database, DRscDB (https://www.flyrnai.org/tools/single_cell/web/), to address this need. DRscDB serves as a comprehensive repository for published scRNA-seq datasets for Drosophila and relevant datasets from human and other model organisms. DRscDB is based on manual curation of Drosophila scRNA-seq studies of various tissue types and their corresponding analogous tissues in vertebrates including zebrafish, mouse, and human. Of note, our search database provides most of the literature-derived marker genes, thus preserving the original analysis of the published scRNA-seq datasets. Finally, DRscDB serves as a web-based user interface that allows users to mine gene expression data from scRNA-seq studies and perform cell cluster enrichment analyses pertaining to various scRNA-seq studies, both within and across species.

【 授权许可】

Unknown