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GlobDB: a comprehensive species-dereplicated microbial genome resource

descriptionPublicationkeyboard_double_arrow_right Article , Preprint 26 Dec 2024Embargo end date: 01 Jan 2025 Denmark, Austria, Denmark English Publisher:Oxford University Press (OUP)Journal:Bioinformatics Advances, volume 5 (eissn: 2635-0041, Copyright policy )
Authors: Daan R Speth; Nick Pullen; Samuel T N Aroney; Benjamin L Coltman; Jay Osvatic; Ben J Woodcroft; Thomas Rattei; +1 Authors

doi: 10.1093/bioadv/vbaf280 , 10.48550/arxiv.2506.11896

pmid: 41268474

pmc: PMC12629238

arXiv: 2506.11896

GlobDB: a comprehensive species-dereplicated microbial genome resource

Abstract

Abstract Motivation Over the past years, substantial numbers of microbial species’ genomes have been deposited outside of conventional INSDC databases. Results The GlobDB aggregates 14 independent genomic catalogues to provide a comprehensive database of species-dereplicated microbial genomes, with consistent taxonomy, annotations, and additional analysis resources. The GlobDB more than doubles the number of microbial species represented by genomes relative to the field standard genome taxonomy database. Availability and implementation The GlobDB is available at https://globdb.org/.

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Denmark, Austria, Denmark
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Keywords

Genomics (q-bio.GN), 106022 Mikrobiologie, 106014 Genomics, 106005 Bioinformatik, FOS: Biological sciences, Application Note, 106014 Genomik, 106022 Microbiology, Genomics, 106005 Bioinformatics

  • BIP!
    Impact byBIP!
    selected citations
    These citations are derived from selected sources.
    This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    		 2
    popularity
    This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
    		 Top 10%
    influence
    This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    		 Average
    impulse
    This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
    		 Average
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
2
Top 10%
Average
Average
Green
gold
Related to Research communities
UArctic