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proGenomes3: approaching one million accurately and consistently annotated high-quality prokaryotic genomes

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Item Type:Article
Title:proGenomes3: approaching one million accurately and consistently annotated high-quality prokaryotic genomes
Creators Name:Fullam, A. and Letunic, I. and Schmidt, T.S.B. and Ducarmon, Q.R. and Karcher, N. and Khedkar, S. and Kuhn, M. and Larralde, M. and Maistrenko, O.M. and Malfertheiner, L. and Milanese, A. and Rodrigues, J.F.M. and Sanchis-López, C. and Schudoma, C. and Szklarczyk, D. and Sunagawa, S. and Zeller, G. and Huerta-Cepas, J. and von Mering, C. and Bork, P. and Mende, D.R.
Abstract:The interpretation of genomic, transcriptomic and other microbial 'omics data is highly dependent on the availability of well-annotated genomes. As the number of publicly available microbial genomes continues to increase exponentially, the need for quality control and consistent annotation is becoming critical. We present proGenomes3, a database of 907 388 high-quality genomes containing 4 billion genes that passed stringent criteria and have been consistently annotated using multiple functional and taxonomic databases including mobile genetic elements and biosynthetic gene clusters. proGenomes3 encompasses 41 171 species-level clusters, defined based on universal single copy marker genes, for which pan-genomes and contextual habitat annotations are provided. The database is available at http://progenomes.embl.de/.
Keywords:Factual Databases, Genetic Databases, Genome, Genomics, Molecular Sequence Annotation, Prokaryotic Cells
Source:Nucleic Acids Research
Publisher:Oxford University Press
Page Range:D760-D766
Date:6 January 2023
Official Publication:https://doi.org/10.1093/nar/gkac1078
PubMed:View item in PubMed

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