Peer-reviewedCC BY-NC 4.0STAR Protocols
Protocol for integrative transcriptomic/metabolomic analysis: A case study on factors influencing the oyster-POMS disease
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.
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BibTeX
@article{duperret2026protocol,
title = {{Protocol for integrative transcriptomic/metabolomic analysis: A case study on factors influencing the oyster-POMS disease}},
author = {Leo Duperret and Alejandro Valdivieso and Bruno Petton and Benjamin Morga and Nicole Faury and Julien de Lorgeril and Charlotte Corporeau and Lionel Dégremont and Sylvain Henry and Andrei Turtoi and Juliette Pouzadoux and Océane Romatif and Gaelle Courtay and Cristián Monaco and Eve Toulza and Arnaud Lagorce and Jeremie Vidal-Dupiol and Guillaume Mitta},
journal = {STAR Protocols},
year = {2026},
month = oct,
doi = {10.1016/j.xpro.2026.104875},
url = {https://hal.science/hal-05787368v1},
note = {CC BY-NC 4.0},
}
RIS
TY - JOUR
TI - Protocol for integrative transcriptomic/metabolomic analysis: A case study on factors influencing the oyster-POMS disease
AU - Leo Duperret
AU - Alejandro Valdivieso
AU - Bruno Petton
AU - Benjamin Morga
AU - Nicole Faury
AU - Julien de Lorgeril
AU - Charlotte Corporeau
AU - Lionel Dégremont
AU - Sylvain Henry
AU - Andrei Turtoi
AU - Juliette Pouzadoux
AU - Océane Romatif
AU - Gaelle Courtay
AU - Cristián Monaco
AU - Eve Toulza
AU - Arnaud Lagorce
AU - Jeremie Vidal-Dupiol
AU - Guillaume Mitta
PY - 2026
DA - 2026/10/08
JO - STAR Protocols
DO - 10.1016/j.xpro.2026.104875
UR - https://hal.science/hal-05787368v1
AB - 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.
SN - 2666-1667
ER -