{
  "abstract": "Transcriptomics is moving beyond gene‐level quantification toward isoform‐resolved interrogation of alternative splicing, transcript structural variation, and repeat‐derived transcription. Yet short‐read sequencing remains intrinsically limited in accurately reconstructing full‐length transcripts and resolving complex repetitive regions, including transposable elements. Recent advances in long‐read sequencing, exemplified by Pacific Biosciences (PacBio) and Oxford Nanopore Technologies (ONT), offer a transformative opportunity to directly observe complete RNA molecules and thereby overcome these bottlenecks. However, practical adoption is hindered by demanding library construction and the need to process noisy, fast‐evolving long‐read data, and the field still lacks a unified resource that guides researchers through the entire experimental and analytical workflow. This review fills that gap by providing a concise, end‐to‐end, and implementation‐oriented roadmap for long‐read transcriptomics. We distill the key decisions from platform and library strategy selection to core computational processing and downstream interpretation, and we summarize emerging frontiers and best‐practice recommendations. By offering a reusable framework and practical checklists, this guide empowers a broader community to exploit long reads for standardized, reproducible, isoform‐level discovery at unprecedented resolution.",
  "abstract_shown": true,
  "affiliations": [
    "School of Mathematics and Statistics Wuhan University Wuhan China",
    "Department of Reproductive Medicine The First Affiliated Hospital of Xi'an Jiaotong University Xi'an China",
    "State Key Laboratory of Medical Proteomics, National Center for Protein Sciences (Beijing) Research Unit of Proteomics‐driven Cancer Precision Medicine (Chinese Academy of Medical Sciences) Beijing China",
    "The Conservation of Endangered Wildlife Key Laboratory of Sichuan Province Chengdu Research Base of Giant Panda Breeding Chengdu China",
    "Department of Urology of The First Affiliated Hospital & Liangzhu Laboratory Zhejiang University School of Medicine Hangzhou China",
    "Brain Cognition and Brain Disease Institute, Shenzhen Institute of Advanced Technology Chinese Academy of Sciences Shenzhen China",
    "Chinese Institutes for Medical Research (CIMR) Beijing China",
    "Department of Neurology Xuanwu Hospital Capital Medical University, National Center for Neurological Disorders Beijing China",
    "Beijing Municipal Geriatric Medical Research Center Beijing China",
    "School of Artificial Intelligence Wuhan University Wuhan China",
    "Stanley and Judith Frankel Institute for Heart and Brain Health University of Michigan Medical Center Ann Arbor Michigan USA",
    "Benagen Institute Wuhan China",
    "Institute for Integrative Systems Biology Spanish National Research Council Paterna Spain",
    "Institute for Math & AI Wuhan University Wuhan China"
  ],
  "article_type": "review article",
  "arxiv": null,
  "author_total": 22,
  "authors": [
    {
      "affs": [
        0
      ],
      "name": "Chuwen Xu",
      "orcid": "0009-0002-3403-2695"
    },
    {
      "affs": [
        0
      ],
      "name": "Jia Li",
      "orcid": "0009-0003-6734-2398"
    },
    {
      "affs": [
        1
      ],
      "name": "Chenxi Yin",
      "orcid": "0009-0006-6521-0967"
    },
    {
      "affs": [
        1
      ],
      "name": "Keying Li",
      "orcid": "0009-0000-4626-2151"
    },
    {
      "affs": [
        1
      ],
      "name": "Tian Wang"
    },
    {
      "affs": [
        0
      ],
      "name": "Shiwen Gao"
    },
    {
      "affs": [
        0
      ],
      "name": "Yue Yu"
    },
    {
      "affs": [
        2
      ],
      "name": "Cheng Chang"
    },
    {
      "affs": [
        3
      ],
      "name": "Ye Wang"
    },
    {
      "affs": [
        1
      ],
      "name": "Guoqing Tong"
    },
    {
      "affs": [
        4
      ],
      "name": "Liang Gong"
    },
    {
      "affs": [
        5
      ],
      "name": "Wen Hu"
    },
    {
      "affs": [
        6,
        7,
        8
      ],
      "name": "Guoliang Chai"
    },
    {
      "affs": [
        7
      ],
      "name": "Yilai Han"
    },
    {
      "affs": [
        9
      ],
      "name": "Qian Qin"
    },
    {
      "affs": [
        0
      ],
      "name": "Suoqin Jin"
    },
    {
      "affs": [
        0
      ],
      "name": "Xiufen Zou"
    },
    {
      "affs": [
        10
      ],
      "name": "Bo Li"
    },
    {
      "affs": [
        11
      ],
      "name": "Tianyuan Zhang"
    },
    {
      "affs": [
        12
      ],
      "name": "Ana Conesa"
    },
    {
      "affs": [
        1
      ],
      "name": "Yunhao Wang",
      "orcid": "0000-0002-6949-290X"
    },
    {
      "affs": [
        0,
        13
      ],
      "name": "Dingjie Wang",
      "orcid": "0000-0002-2890-5712"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/a4r8w1h0bmx7r.bib",
  "cited_by": 0,
  "doi": "10.1002/imt2.70171",
  "fulltext_url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC13634186/",
  "id": "a4r8w1h0bmx7r",
  "issns": [
    "2770-5986",
    "2770-596X"
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  "landing_url": "https://doi.org/10.1002/imt2.70171",
  "language": "en",
  "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": [
    [
      "heading",
      "Review Article"
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      "1312|Genomics and Phylogenetic Studies"
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  "pdf_url": null,
  "pmcid": "PMC13634186",
  "pmid": "42830932",
  "published": "2026-10-04",
  "publisher": "Wiley",
  "ris": "https://research.draconitic.com/paper/a4r8w1h0bmx7r.ris",
  "sources": [
    {
      "first_seen": "2026-11-01T12:23:33Z",
      "native_id": "PMC13634186",
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      "url": "https://doi.org/10.1002/imt2.70171"
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  "subjects": [
    {
      "field": "biochemistry",
      "origin": "openalex:1312|Genomics and Phylogenetic Studies",
      "subfield": "molecular-biology"
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  ],
  "title": "Deciphering transcriptome complexity via long‐read sequencing",
  "title_text": "Deciphering transcriptome complexity via long‐read sequencing",
  "type": "peer-reviewed",
  "updated_at": "2026-11-02T12:20:47Z",
  "url": "https://research.draconitic.com/paper/a4r8w1h0bmx7r",
  "venue": "iMeta",
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}