MicroCellClust: mining rare and highly specific subpopulations from single-cell expression data.

ABSTRACT: Identifying rare subpopulations of cells is a critical step in order to extract knowledge from single-cell expression data, especially when the available data is limited and rare subpopulations only contain a few cells. In this paper, we present a data mining method to identify small subpopulations of cells that present highly specific expression profiles. This objective is formalized as a constrained optimization problem that jointly identifies a small group of cells and a corresponding subset of specific genes. The proposed method extends the max-sum submatrix problem to yield genes that are, for instance, highly expressed inside a small number of cells, but have a low expression in the remaining ones. We show through controlled experiments on scRNA-seq data that the MicroCellClust metho

SUBMITTER: Gerniers A 

PROVIDER: S-EPMC8504615 | biostudies-literature | 2021 Apr

REPOSITORIES: biostudies-literature