{
  "abstract": "Tumor xenograft sequencing libraries inevitably contain infiltrating murine host reads, but conventional deconvolution tools fail on bisulfite sequencing (BS-seq) because chemical C-to-T deamination collapses sequence entropy and destroys graft recall (< 0.015%). We present OTTER, an automated, compiled multi-omics workflow framework that decouples execution into static domain operators, an immutable reference registry, and a native strand-aware edit-distance engine, restoring bisulfite deconvolution (52%-54% recall across a 0%-99% compositional gradient) while preserving complete decision parity on transcriptomics. Availability and implementation: OTTER is implemented in Go and Rust, runs on x86_64 Linux (including CentOS 7 with glibc 2.17), and is freely available open-source under the MIT License at https://github.com/otterlab-bio/otter; test and validation data are provided at https://huggingface.co/datasets/fallingstar10/otter-data.",
  "abstract_shown": true,
  "affiliations": [
    "Hefei Cancer Hospital of CAS, Institute of Health and Medical Technology, Hefei Institutes of Physical Science, Chinese Academy of Sciences, China"
  ],
  "article_type": "New results",
  "arxiv": null,
  "author_total": 10,
  "authors": [
    {
      "name": "Y. Zheng"
    },
    {
      "name": "X. Liu"
    },
    {
      "name": "Y. Yi"
    },
    {
      "name": "X. Sun"
    },
    {
      "name": "F. Liu"
    },
    {
      "name": "X. Yan"
    },
    {
      "name": "C.-H. Man"
    },
    {
      "name": "H. Gu"
    },
    {
      "name": "X. Wang"
    },
    {
      "affs": [
        0
      ],
      "name": "F. Zhang"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/4g6m2f7z9691w.bib",
  "cited_by": 0,
  "doi": "10.64898/2026.10.24.761506",
  "fulltext_url": "https://www.biorxiv.org/content/10.64898/2026.10.24.761506v1.full",
  "id": "4g6m2f7z9691w",
  "issns": [],
  "landing_url": "https://www.biorxiv.org/content/10.64898/2026.10.24.761506v1",
  "language": null,
  "licence": "CC-BY",
  "licence_label": "CC BY",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "biorxiv",
      "bioinformatics"
    ],
    [
      "openalex",
      "1312|Genomics and Phylogenetic Studies"
    ]
  ],
  "openalex": "W7223836669",
  "pdf_url": "https://www.biorxiv.org/content/10.64898/2026.10.24.761506v1.full.pdf",
  "pmcid": null,
  "pmid": null,
  "published": "2026-10-24",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/4g6m2f7z9691w.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:29:48Z",
      "native_id": "10.64898/2026.10.24.761506",
      "source": "biorxiv",
      "url": "https://www.biorxiv.org/content/10.64898/2026.10.24.761506v1"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "biorxiv:bioinformatics",
      "subfield": "bioinformatics"
    }
  ],
  "title": "OTTER: Orchestrated Transcriptomic, Tumor-xenograft (PDX/CDX), and Epigenomic Reporting Workflow",
  "title_text": "OTTER: Orchestrated Transcriptomic, Tumor-xenograft (PDX/CDX), and Epigenomic Reporting Workflow",
  "type": "preprint",
  "updated_at": "2026-10-30T12:29:48Z",
  "url": "https://research.draconitic.com/paper/4g6m2f7z9691w",
  "venue": "bioRxiv",
  "versions": []
}