CCPLS reveals cell-type-specific spatial dependence of transcriptomes in single cells.

ABSTRACT:

Motivation

Cell-cell communications regulate internal cellular states, e.g. gene expression and cell functions, and play pivotal roles in normal development and disease states. Furthermore, single-cell RNA sequencing methods have revealed cell-to-cell expression variability of highly variable genes (HVGs), which is also crucial. Nevertheless, the regulation of cell-to-cell expression variability of HVGs via cell-cell communications is still largely unexplored. The recent advent of spatial transcriptome methods has linked gene expression profiles to the spatial context of single cells, which has provided opportunities to reveal those regulations. The existing computational methods extract genes with expression levels influenced by neighboring cell types. However, limitations remain

SUBMITTER: Tsuchiya T 

PROVIDER: S-EPMC9620831 | biostudies-literature | 2022 Oct

REPOSITORIES: biostudies-literature