SMaSH: a scalable, general marker gene identification framework for single-cell RNA-sequencing.

ABSTRACT:

Background

Single-cell RNA-sequencing is revolutionising the study of cellular and tissue-wide heterogeneity in a large number of biological scenarios, from highly tissue-specific studies of disease to human-wide cell atlases. A central task in single-cell RNA-sequencing analysis design is the calculation of cell type-specific genes in order to study the differential impact of different replicates (e.g. tumour vs. non-tumour environment) on the regulation of those genes and their associated networks. The crucial task is the efficient and reliable calculation of such cell type-specific 'marker' genes. These optimise the ability of the experiment to isolate highly-specific cell phenotypes of interest to the analyser. However, while methods exist that can calculate marker genes from s

SUBMITTER: Nelson ME 

PROVIDER: S-EPMC9361618 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature