{
  "abstract": "Rapid developments in sequencing technologies have reduced the costs of transcriptomic experiments and resulted in a plethora of publicly available RNA-seq datasets. This is a valuable resource that can be harnessed to obtain novel biological insights through data upcycling. In this wake, we introduce XpBrew, an end-to-end Python workflow that was applied to generate PanXpresso, a comprehensive collection of gene expression datasets covering the taxonomic breadth of plants, animals, fungi, bacteria and archaea. XpBrew (https://github.com/PuckerLab/XpBrew) and PanXpresso (https://doi.org/10.60507/FK2/OBIGQH) are freely available.",
  "abstract_shown": true,
  "affiliations": [
    "University of Bonn, Institute for Cellular & Molecular Botany (IZMB)"
  ],
  "article_type": "New results",
  "arxiv": null,
  "author_total": 7,
  "authors": [
    {
      "name": "S. Natarajan"
    },
    {
      "name": "C. Sterling"
    },
    {
      "name": "N. Choudhary"
    },
    {
      "name": "N. Khatun"
    },
    {
      "name": "M.-S. Brieske"
    },
    {
      "name": "H. E. Busch"
    },
    {
      "affs": [
        0
      ],
      "name": "B. Pucker"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/0fgkt74rks14m.bib",
  "cited_by": 0,
  "doi": "10.64898/2026.08.27.747620",
  "fulltext_url": "https://www.biorxiv.org/content/10.64898/2026.08.27.747620v1.full",
  "id": "0fgkt74rks14m",
  "issns": [],
  "landing_url": "https://www.biorxiv.org/content/10.64898/2026.08.27.747620v1",
  "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": "W7205017357",
  "pdf_url": "https://www.biorxiv.org/content/10.64898/2026.08.27.747620v1.full.pdf",
  "pmcid": null,
  "pmid": null,
  "published": "2026-08-27",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/0fgkt74rks14m.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:18:27Z",
      "native_id": "10.64898/2026.08.27.747620",
      "source": "biorxiv",
      "url": "https://www.biorxiv.org/content/10.64898/2026.08.27.747620v1"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "biorxiv:bioinformatics",
      "subfield": "bioinformatics"
    }
  ],
  "title": "XpBrew and PanXpresso - automatic RNA-seq processing workflow and comprehensive collection of gene expression data",
  "title_text": "XpBrew and PanXpresso - automatic RNA-seq processing workflow and comprehensive collection of gene expression data",
  "type": "preprint",
  "updated_at": "2026-10-30T12:18:27Z",
  "url": "https://research.draconitic.com/paper/0fgkt74rks14m",
  "venue": "bioRxiv",
  "versions": []
}