Dr Foret's work gravitated around the area of genomics and bioinformatics, where he developed both applied and theoretical interests. His theoretical work drew from the fields of statistics and computer science, motivated by the analysis of biological sequences, phylogenetic inference and gene expression data analysis. His biological research has been driven by his interest in the evolution of invertebrates. In particular, he has worked on the molecular bases of chemical communication, the evolution of development (evo-devo) and epigenetics, both in insects and corals.
He used bioinformatics and molecular techniques to understand how a genome works, and the interaction between genome and environment. He focussed mainly on honeybees and corals. Greatest achievement: “I assembled the first animal genome entirely sequenced in Australia, that of the coral Acropora millepora".