| Title: | White paper: standards for handling and analyzing plant pan-genomes |
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| Authors: | ID Heuermann, Marc C. (Author)
ID Barros, Pedro Miguel (Author)
ID Beier, Sebastian (Author)
ID Godec, Tim (Author)
ID Gruden, Kristina (Author)
ID Nolte, Nadja Franziska (Author)
ID Petek, Marko (Author)
ID Zagorščak, Maja (Author) |
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| Files: |  URL - Source URL, visit https://f1000research.com/articles/14-739/v2
 PDF - Presentation file, download (1,20 MB)
MD5: 221366E620A6DF806CE699FB0CB9704F
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| Language: | English |
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| Typology: | 1.02 - Review Article |
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| Organization: |  NIB - National Institute of Biology
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| Abstract: | Plant pan-genomes, which aggregate genomic sequences and annotations from multiple individuals of a species, have emerged as transformative tools for understanding genetic diversity, adaptation, and evolutionary dynamics. Super-pan-genomes, extending across species boundaries, further enable comparative analyses of clades or genera, bridging breeding applications with evolutionary insights (Shang et al., 2022; Li et al., 2023a). However, the absence of standardized practices for data generation, analysis, and sharing hinders reproducibility and interoperability. This white paper presents a harmonized framework developed by the ELIXIR E-PAN consortium, addressing nomenclature, quality control (QC), data formats, visualization, and community practices. By adopting these guidelines, researchers can enhance FAIR (Findable, Accessible, Interoperable, Reusable) compliance, foster collaboration, and accelerate translational applications in crop improvement and evolutionary biology. |
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| Keywords: | plant pan-genome, white paper, standards, quality control |
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| Publication status: | Published |
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| Publication version: | Version of Record |
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| Publication date: | 18.11.2025 |
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| Year of publishing: | 2025 |
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| Number of pages: | str. 1-10 |
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| Numbering: | Vol. 14, [article no.] 739 |
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| PID: | 20.500.12556/DiRROS-27743  |
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| UDC: | 577.2 |
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| ISSN on article: | 2046-1402 |
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| DOI: | 10.12688/f1000research.166538.2 |
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| COBISS.SI-ID: | 267262979 |
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| Note: | Soavtorji: Pedro Barros, Sebastian Beier, Heidrun Gundlach, Jorge Alvarez-Jarreta, Keywan Hassani-Pak, Patrick König, Anne Fiebig, Tim Godec, Kristina Gruden, Nadja Nolte, Marko Petek, Uwe Scholz, Maja Zagorščak, Klaas Vandepoele, Michiel Van Bel;
Nasl. z nasl. zaslona;
Opis vira z dne 4. 2. 2026;
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| Publication date in DiRROS: | 24.02.2026 |
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| Views: | 192 |
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| Downloads: | 47 |
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