Reassessing the modularity of gene co-expression networks using the Stochastic Block Model.

ABSTRACT: Finding communities in gene co-expression networks is a common first step toward extracting biological insight from such complex datasets. Most community detection algorithms expect genes to be organized into assortative modules, that is, groups of genes that are more associated with each other than with genes in other groups. While it is reasonable to expect that these modules exist, using methods that assume they exist a priori is risky, as it guarantees that alternative organizations of gene interactions will be ignored. Here, we ask: can we find meaningful communities without imposing a modular organization on gene co-expression networks, and how modular are these communities? For this, we use a recently developed community detection method, the weighted degree corrected stochastic blo

SUBMITTER: Melo D 

PROVIDER: S-EPMC10312592 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature