DEGGs: an R package with shiny app for the identification of differentially expressed gene-gene interactions in high-throughput sequencing data

Elisabetta C. Sciacca, Salvatore Alaimo, Gianmarco Silluzio, Alfredo Ferro, Vito Latora, Costantino Pitzalis, Alfredo Pulvirenti, Myles J. Lewis

Abstract: The discovery of differential gene–gene correlations across phenotypical groups can help identify the activation/deactivation of critical biological processes underlying specific conditions. The presented R package, provided with a count and design matrix, extract networks of group-specific interactions that can be interactively explored through a shiny user-friendly interface. For each gene–gene link, differential statistical significance is provided through robust linear regression with an interaction term.