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Updated: Oct 5, 2026
The MPLEx Protocol for Multi-omic Analyses of Soil Samples
Published on: May 30, 2018
Protocol for integrative transcriptomic/metabolomic analysis: A case study on factors influencing the oyster-POMS
Leo Duperret1, Alejandro Valdivieso2, Bruno Petton3
1IHPE, University of Perpignan Via Domitia, CNRS, IFREMER, University of Montpellier, Perpignan, France.
Abstract:
Deciphering the molecular mechanisms underlying complex biological interactions requires comprehensive approaches that capture these interactions across multiple regulatory and functional levels. Here, we present a protocol applied to the host-pathogen-environment interactions underlying Pacific oyster mortality syndrome (POMS) in Magallana gigas. We describe steps from individual transcriptomic and metabolomic workflows using WGCNA and FELLA packages, to their integration in a biologically meaningful framework. This protocol aims to move omics integration beyond statistical correlations toward functional enrichment with cross-validation at the system level. For complete details on the use and execution of this protocol, please refer to Duperret et al.1.