{
  "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.",
  "abstract_shown": true,
  "affiliations": [],
  "article_type": null,
  "arxiv": null,
  "author_total": 18,
  "authors": [
    {
      "name": "Leo Duperret"
    },
    {
      "name": "Alejandro Valdivieso"
    },
    {
      "name": "Bruno Petton"
    },
    {
      "name": "Benjamin Morga"
    },
    {
      "name": "Nicole Faury"
    },
    {
      "name": "Julien de Lorgeril"
    },
    {
      "name": "Charlotte Corporeau"
    },
    {
      "name": "Lionel Dégremont"
    },
    {
      "name": "Sylvain Henry"
    },
    {
      "name": "Andrei Turtoi"
    },
    {
      "name": "Juliette Pouzadoux"
    },
    {
      "name": "Océane Romatif"
    },
    {
      "name": "Gaelle Courtay"
    },
    {
      "name": "Cristián Monaco"
    },
    {
      "name": "Eve Toulza"
    },
    {
      "name": "Arnaud Lagorce"
    },
    {
      "name": "Jeremie Vidal-Dupiol"
    },
    {
      "name": "Guillaume Mitta"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/5y9ss27yx1vwm.bib",
  "cited_by": 0,
  "doi": "10.1016/j.xpro.2026.104875",
  "fulltext_url": null,
  "id": "5y9ss27yx1vwm",
  "issns": [
    "2666-1667"
  ],
  "landing_url": "https://hal.science/hal-05787368v1",
  "language": "en",
  "licence": "CC-BY-NC-4.0",
  "licence_label": "CC BY-NC 4.0",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by-nc/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "hal",
      "0.sdv"
    ],
    [
      "hal",
      "1.sdv.bbm"
    ],
    [
      "hal",
      "2.sdv.bbm.gtp"
    ],
    [
      "openalex",
      "2306|Marine Bivalve and Aquaculture Studies"
    ]
  ],
  "openalex": "W7218772732",
  "pdf_url": "https://hal.science/hal-05787368/document",
  "pmcid": null,
  "pmid": null,
  "published": "2026-10-08",
  "publisher": "Elsevier",
  "ris": "https://research.draconitic.com/paper/5y9ss27yx1vwm.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:17:51Z",
      "native_id": "hal-05787368",
      "source": "hal",
      "url": "https://hal.science/hal-05787368v1"
    }
  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "hal:2.sdv.bbm.gtp",
      "subfield": "proteomics-metabolomics"
    },
    {
      "field": "biology",
      "origin": "hal:0.sdv",
      "subfield": "general"
    }
  ],
  "title": "Protocol for integrative transcriptomic/metabolomic analysis: A case study on factors influencing the oyster-POMS disease",
  "title_text": "Protocol for integrative transcriptomic/metabolomic analysis: A case study on factors influencing the oyster-POMS disease",
  "type": "peer-reviewed",
  "updated_at": "2026-10-30T12:17:51Z",
  "url": "https://research.draconitic.com/paper/5y9ss27yx1vwm",
  "venue": "STAR Protocols",
  "versions": []
}