{
  "abstract": "Deep learning models have achieved state-of-the-art performance at predicting diverse genomic modalities, yet their promise for biological discovery lies in how they are used after demonstrating their predictive performance. Here we describe the functionality of tangermeme, a highly optimized toolkit for 'everything-but-the-model' when it comes to genomic deep learning, and demonstrate how tangermeme can be used to distill the learned cis-regulatory patterns from models into human-interpretable insights.",
  "abstract_shown": true,
  "affiliations": [
    "Department of Genomics and Computational Biology, UMass Chan Medical School, Worcester, MA, USA. jacob.schreiber@umassmed.edu",
    "Research Institute of Molecular Pathology, Vienna BioCenter, Vienna, Austria. jacob.schreiber@umassmed.edu"
  ],
  "article_type": null,
  "arxiv": null,
  "author_total": 1,
  "authors": [
    {
      "affs": [
        0,
        1
      ],
      "name": "Jacob Matthew Schreiber",
      "orcid": "0000-0003-4230-6625"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/77ypeg0dty74z.bib",
  "cited_by": 22,
  "doi": "10.1038/s41592-026-03254-z",
  "fulltext_url": null,
  "id": "77ypeg0dty74z",
  "issns": [
    "1548-7091",
    "1548-7105"
  ],
  "landing_url": "https://doi.org/10.1038/s41592-026-03254-z",
  "language": "en",
  "licence": "CC-BY",
  "licence_label": "CC BY",
  "licence_source": "journal",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "openalex",
      "1312|Genomics and Chromatin Dynamics"
    ]
  ],
  "openalex": "W7221037795",
  "pdf_url": "https://www.nature.com/articles/s41592-026-03254-z.pdf",
  "pmcid": null,
  "pmid": "42850431",
  "published": "2026-10-08",
  "publisher": "Nature Portfolio",
  "ris": "https://research.draconitic.com/paper/77ypeg0dty74z.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T13:26:46Z",
      "native_id": "W7221037795",
      "source": "openalex",
      "url": "https://doi.org/10.1038/s41592-026-03254-z"
    }
  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "openalex:1312|Genomics and Chromatin Dynamics",
      "subfield": "molecular-biology"
    }
  ],
  "title": "Tangermeme: a toolkit for understanding cis-regulatory logic using deep learning models",
  "title_text": "Tangermeme: a toolkit for understanding cis-regulatory logic using deep learning models",
  "type": "peer-reviewed",
  "updated_at": "2026-11-07T13:20:47Z",
  "url": "https://research.draconitic.com/paper/77ypeg0dty74z",
  "venue": "Nature Methods",
  "versions": []
}