{
  "abstract": "PanGBank (https://pangbank.genoscope.cns.fr) is a comprehensive open-access database providing precomputed prokaryotic pangenomes at a broad taxonomic scale. Built upon PPanGGOLiN partitioned pangenome graphs, PanGBank addresses the growing need for large-scale comparative genomics through a standardized, regularly updated, and fully accessible resource. The initial release comprises two complementary collections covering >4600 prokaryotic species from the Genome Taxonomy Database (GTDB), encompassing over 393 000 genomes: GTDB_all, maximizing taxonomic and environmental diversity through the inclusion of metagenome-assembled genomes and single-cell amplified genomes, and GTDB_refseq, focusing on high-quality, annotation-rich genomes. Each species-level pangenome integrates graph-based statistical partitions into persistent, shell, and cloud gene families, together with regions of genomic plasticity (panRGP) and co-localized functional modules (panModule). PanGBank offers multiple access modes, including a REST API, a command-line interface, and an interactive web interface. By combining large-scale pangenome resources with advanced graph-based analyses, PanGBank provides a scalable framework for exploring microbial diversity, genome evolution, functional variation, and the dissemination of adaptive traits across prokaryotic populations, as illustrated by a use case on Acinetobacter baumannii pangenome investigating the distribution and evolution of antimicrobial resistance determinants.",
  "abstract_shown": true,
  "affiliations": [],
  "article_type": null,
  "arxiv": null,
  "author_total": 8,
  "authors": [
    {
      "name": "Jean Mainguy"
    },
    {
      "name": "Téo Lemane"
    },
    {
      "name": "Adelme Bazin"
    },
    {
      "name": "Jérôme Arnoux"
    },
    {
      "name": "Guillaume Gautreau"
    },
    {
      "name": "Claudine Médigue"
    },
    {
      "name": "Alexandra Calteau"
    },
    {
      "name": "David Vallenet"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/dh92mb3qtptq5.bib",
  "cited_by": 1,
  "doi": "10.1093/nar/gkag948",
  "fulltext_url": null,
  "id": "dh92mb3qtptq5",
  "issns": [
    "0305-1048",
    "1362-4962"
  ],
  "landing_url": "https://hal.science/hal-05779522v1",
  "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": [
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      "1312|Genomics and Phylogenetic Studies"
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  "openalex": "W7202080154",
  "pdf_url": "https://hal.science/hal-05779522/document",
  "pmcid": null,
  "pmid": null,
  "published": "2026-10-05",
  "publisher": "Oxford University Press",
  "ris": "https://research.draconitic.com/paper/dh92mb3qtptq5.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:17:48Z",
      "native_id": "hal-05779522",
      "source": "hal",
      "url": "https://hal.science/hal-05779522v1"
    }
  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "hal:2.sdv.bbm.gtp",
      "subfield": "proteomics-metabolomics"
    },
    {
      "field": "biology",
      "origin": "hal:1.sdv.bibs",
      "subfield": "bioinformatics"
    },
    {
      "field": "biology",
      "origin": "hal:1.sdv.mp",
      "subfield": "microbiology"
    }
  ],
  "title": "PanGBank: a large-scale resource of precomputed microbial pangenomes built with PPanGGOLiN",
  "title_text": "PanGBank: a large-scale resource of precomputed microbial pangenomes built with PPanGGOLiN",
  "type": "peer-reviewed",
  "updated_at": "2026-11-04T12:20:48Z",
  "url": "https://research.draconitic.com/paper/dh92mb3qtptq5",
  "venue": "Nucleic Acids Research",
  "versions": []
}