Scope+: an open source generalizable architecture for single-cell RNA-seq atlases at sample and cell levels.

ABSTRACT:

Summary

With the recent advancement in single-cell RNA-sequencing technologies and the increased availability of integrative tools, challenges arise in easy and fast access to large collections of cell atlas. Existing cell atlas portals rarely are open sourced and adaptable, and do not support meta-analysis at cell level. Here, we present an open source, highly optimized and scalable architecture, named Scope+, to allow quick access, meta-analysis and cell-level selection of the atlas data. We applied this architecture to our well-curated 5 million COVID-19 blood and immune cells, as a portal called Covidscope. We achieved efficient access to atlas-scale data via three strategies, such as cell-as-unit data modelling, novel database optimization techniques and innovative software ar

SUBMITTER: Yin D 

PROVIDER: S-EPMC11755096 | biostudies-literature | 2024 Dec

REPOSITORIES: biostudies-literature