{
  "abstract": "The technology to sequence full-length transcriptomes from bulk and single-cell samples has rapidly advanced. As a result, full-length cDNA datasets now reach billions of reads in size which is beyond the capability of most established isoform identification tools. Here, we introduce IG-28 which addresses this challenge with its capability to process and analyze large fl-cDNA datasets fast and using minimal computational resources. In contrast to its predecessor Mandalorion, IG-28 is not limited to bulk fl-cDNA but is capable of parsing, processing, and analyzing single-cell fl-cDNA datasets. It does so in a lightweight, flexible manner, integrating seamlessly with established scRNA-seq analysis workflows. We benchmarked IG-28 against a variety of established and new isoform identification tools using several bulk and a complex single-cell fl-cDNA dataset and found that IG-28 consistently outperformed the other tools by identifying high-confidence public isoforms.",
  "abstract_shown": true,
  "affiliations": [
    "University of California Santa Cruz"
  ],
  "article_type": "New results",
  "arxiv": null,
  "author_total": 5,
  "authors": [
    {
      "name": "A. Calicchio"
    },
    {
      "name": "A. O. Li"
    },
    {
      "name": "T. Herwadkar"
    },
    {
      "name": "H. E. Mekonen"
    },
    {
      "affs": [
        0
      ],
      "name": "C. Vollmers"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/1rb7s3h691142.bib",
  "cited_by": 0,
  "doi": "10.64898/2026.10.23.761370",
  "fulltext_url": "https://www.biorxiv.org/content/10.64898/2026.10.23.761370v1.full",
  "id": "1rb7s3h691142",
  "issns": [
    "2692-8205"
  ],
  "landing_url": "https://www.biorxiv.org/content/10.64898/2026.10.23.761370v1",
  "language": "en",
  "licence": "CC-BY-NC",
  "licence_label": "CC BY-NC",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by-nc/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "biorxiv",
      "bioinformatics"
    ],
    [
      "heading",
      "Article"
    ]
  ],
  "openalex": null,
  "pdf_url": "https://www.biorxiv.org/content/10.64898/2026.10.23.761370v1.full.pdf",
  "pmcid": "PMC13733813",
  "pmid": "42990254",
  "published": "2026-10-23",
  "publisher": "Cold Spring Harbor Laboratory Preprints",
  "ris": "https://research.draconitic.com/paper/1rb7s3h691142.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:30:31Z",
      "native_id": "10.64898/2026.10.23.761370",
      "source": "biorxiv",
      "url": "https://www.biorxiv.org/content/10.64898/2026.10.23.761370v1"
    },
    {
      "first_seen": "2026-11-08T12:23:31Z",
      "native_id": "PMC13733813",
      "source": "pmc",
      "url": "https://doi.org/10.64898/2026.10.23.761370"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "biorxiv:bioinformatics",
      "subfield": "bioinformatics"
    }
  ],
  "title": "IG-28 enables identification and quantification of high-confidence isoforms from large bulk and single-cell full-length cDNA datasets",
  "title_text": "IG-28 enables identification and quantification of high-confidence isoforms from large bulk and single-cell full-length cDNA datasets",
  "type": "preprint",
  "updated_at": "2026-11-08T12:23:31Z",
  "url": "https://research.draconitic.com/paper/1rb7s3h691142",
  "venue": "bioRxiv",
  "versions": []
}