{
  "abstract": "We report progress on Quest for Pathways with eXpression (QPX), a pathway analysis environment for non-model organisms, developed during the DBCLS BioHackathon 2026 (BH26). Building on prior BH23/BH25 work, we demonstrated PathLift, a tool that lifts WikiPathways GPML pathways to other species via ortholog mapping, using an Arabidopsis-to-rice mitochondrial complex I example. We also created annotated pathway maps in QPX integrating transcriptome/proteome data for hypoxic stress response, and transcriptome/metabolome data for the non-model organism Symplocarpus renifolius, which lacks an established gene ID system. This clarified data-formatting requirements for linking QPX maps to expression tables and surfaced a string-identifier handling issue in QPX's backend, reported upstream. Future work includes reproducible ChEBI ID assignment, automated pathway digitization, and compound-centered functional networks from PubChem/PubTator3 data.",
  "abstract_shown": true,
  "affiliations": [],
  "article_type": null,
  "arxiv": null,
  "author_total": 6,
  "authors": [
    {
      "name": "Hidemasa Bono"
    },
    {
      "name": "Naoya Oec"
    },
    {
      "name": "Haruka Tanimoto"
    },
    {
      "name": "Tomohiro Taguchi"
    },
    {
      "name": "Amane Kurata"
    },
    {
      "name": "Ryo Nozu"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/cgnjjk16dqbw8.bib",
  "cited_by": 0,
  "doi": "10.37044/osf.io/7egfm_v1",
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  "id": "cgnjjk16dqbw8",
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  "landing_url": "https://osf.io/preprints/biohackrxiv/7egfm_v1/",
  "language": null,
  "licence": "CC-BY-4.0",
  "licence_label": "CC BY 4.0",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "bepress",
      "Agriculture"
    ],
    [
      "bepress",
      "Animal Sciences"
    ],
    [
      "bepress",
      "Biochemistry"
    ],
    [
      "bepress",
      "Biochemistry, Biophysics, and Structural Biology"
    ],
    [
      "bepress",
      "Biodiversity"
    ],
    [
      "bepress",
      "Bioinformatics"
    ],
    [
      "bepress",
      "Biology"
    ],
    [
      "bepress",
      "Biotechnology"
    ],
    [
      "bepress",
      "Entomology"
    ],
    [
      "bepress",
      "Food Science"
    ],
    [
      "bepress",
      "Forest Sciences"
    ],
    [
      "bepress",
      "Genetics and Genomics"
    ],
    [
      "bepress",
      "Life Sciences"
    ],
    [
      "bepress",
      "Marine Biology"
    ],
    [
      "bepress",
      "Microbiology"
    ],
    [
      "bepress",
      "Molecular Biology"
    ],
    [
      "bepress",
      "Molecular and Cellular Neuroscience"
    ],
    [
      "bepress",
      "Molecular, Genetic, and Biochemical Nutrition"
    ],
    [
      "bepress",
      "Neuroscience and Neurobiology"
    ],
    [
      "bepress",
      "Nutrition"
    ],
    [
      "bepress",
      "Plant Sciences"
    ],
    [
      "bepress",
      "Research Methods in Life Sciences"
    ],
    [
      "bepress",
      "Systems Biology"
    ],
    [
      "openalex",
      "1312|Bioinformatics and Genomic Networks"
    ]
  ],
  "openalex": "W7213635365",
  "pdf_url": "https://osf.io/7egfm/download",
  "pmcid": null,
  "pmid": null,
  "published": "2026-09-19",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/cgnjjk16dqbw8.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:18:16Z",
      "native_id": "7egfm",
      "source": "osf",
      "url": "https://osf.io/preprints/biohackrxiv/7egfm_v1/"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "bepress:Bioinformatics",
      "subfield": "bioinformatics"
    },
    {
      "field": "biology",
      "origin": "bepress:Marine Biology",
      "subfield": "ecology"
    },
    {
      "field": "biology",
      "origin": "bepress:Genetics and Genomics",
      "subfield": "genetics-genomics"
    },
    {
      "field": "biology",
      "origin": "bepress:Biotechnology",
      "subfield": "systems-synthetic"
    },
    {
      "field": "biology",
      "origin": "bepress:Entomology",
      "subfield": "zoology-behaviour"
    }
  ],
  "title": "DBCLS BioHackathon 2026 report: QPX: Pathway analysis environment for non-model organisms",
  "title_text": "DBCLS BioHackathon 2026 report: QPX: Pathway analysis environment for non-model organisms",
  "type": "preprint",
  "updated_at": "2026-10-30T12:18:16Z",
  "url": "https://research.draconitic.com/paper/cgnjjk16dqbw8",
  "venue": "BioHackrXiv",
  "versions": []
}