{
  "abstract": "Background\n\nWith the advancement of sequencing technologies and increasing quality of assembly and annotation tools, the amount of biological sequence data produced by research grows rapidly. To keep this data accessible for potential re-analysis, it is typically stored in public online databases, such as the European Nucleotide Archive (ENA). However, the increase in data entails an increase in time needed for metadata curation and upload. We propose a tool to simplify and automatize the upload of experimental and metadata to public repositories.Results\n\nWe developed ENflorA, a set of scripts by which sample, sequence read and (annotated) assembly data can be uploaded to ENA in a simple and standardized manner. Our software allows easy metadata entry via spreadsheets, is suitable for batch upload of data from different sources, and can be fully integrated in bioinformatic workflows. It is platform independent and can be run natively on High Performance Computers, integrates an lftp upload option for big files and a test upload option.Conclusions\n\nBy easing the ENA submission process, ENflorA contributes to making high-throughput sequencing data findable, accessible, interoperable and reusable.",
  "abstract_shown": true,
  "affiliations": [
    "Institut für Biologie, Systematische Botanik und Pflanzengeographie, Freie Universität Berlin, Altensteinstraße 6, 14195, Berlin, Germany.",
    "Botanischer Garten und Botanisches Museum Berlin, Freie Universität Berlin, Königin Luise-Straße 6-8, 14195, Berlin, Germany.",
    "Institut für Biologie, Systematische Botanik und Pflanzengeographie, Freie Universität Berlin, Altensteinstraße 6, 14195, Berlin, Germany. katja.reichel@fu-berlin.de."
  ],
  "article_type": "research article",
  "arxiv": null,
  "author_total": 4,
  "authors": [
    {
      "affs": [
        0
      ],
      "name": "Antonio Alfaro de Prado Martín"
    },
    {
      "affs": [
        1
      ],
      "name": "Francisco Fajardo-Gutiérrez"
    },
    {
      "affs": [
        0
      ],
      "name": "Astrid de Mestier"
    },
    {
      "affs": [
        2
      ],
      "name": "Katja Reichel"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/er02ts3ttzhwg.bib",
  "cited_by": 0,
  "doi": "10.1186/s12859-026-06714-7",
  "fulltext_url": "https://europepmc.org/articles/PMC13689177",
  "id": "er02ts3ttzhwg",
  "issns": [
    "1471-2105"
  ],
  "landing_url": "https://europepmc.org/article/MED/42907977",
  "language": "eng",
  "licence": "CC-BY",
  "licence_label": "CC BY",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "lcc",
      "QH301-705.5"
    ],
    [
      "lcc",
      "R858-859.7"
    ],
    [
      "openalex",
      "1312|Genomics and Phylogenetic Studies"
    ]
  ],
  "openalex": "W7223142937",
  "pdf_url": "https://europepmc.org/articles/PMC13689177?pdf=render",
  "pmcid": "PMC13689177",
  "pmid": "42907977",
  "published": "2026-10-21",
  "publisher": "BMC",
  "ris": "https://research.draconitic.com/paper/er02ts3ttzhwg.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:19:53Z",
      "native_id": "MED:42907977",
      "source": "europepmc",
      "url": "https://europepmc.org/article/MED/42907977"
    },
    {
      "first_seen": "2026-10-30T13:46:32Z",
      "native_id": "3bed2e6541014aa49c89d7adc15ddb49",
      "source": "doaj",
      "url": "https://doi.org/10.1186/s12859-026-06714-7"
    }
  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "openalex:1312|Genomics and Phylogenetic Studies",
      "subfield": "molecular-biology"
    }
  ],
  "title": "ENflorA: a flexible tool for the bulk submission of next generation sequencing data to the European Nucleotide Archive.",
  "title_text": "ENflorA: a flexible tool for the bulk submission of next generation sequencing data to the European Nucleotide Archive.",
  "type": "peer-reviewed",
  "updated_at": "2026-10-30T13:46:32Z",
  "url": "https://research.draconitic.com/paper/er02ts3ttzhwg",
  "venue": "BMC bioinformatics",
  "versions": []
}