Comparison of methods and resources for cell-cell communication inference from single-cell RNA-Seq data.

ABSTRACT: The growing availability of single-cell data, especially transcriptomics, has sparked an increased interest in the inference of cell-cell communication. Many computational tools were developed for this purpose. Each of them consists of a resource of intercellular interactions prior knowledge and a method to predict potential cell-cell communication events. Yet the impact of the choice of resource and method on the resulting predictions is largely unknown. To shed light on this, we systematically compare 16 cell-cell communication inference resources and 7 methods, plus the consensus between the methods' predictions. Among the resources, we find few unique interactions, a varying degree of overlap, and an uneven coverage of specific pathways and tissue-enriched proteins. We then examine all

SUBMITTER: Dimitrov D 

PROVIDER: S-EPMC9184522 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature