A complete domain-to-species taxonomy for Bacteria and Archaea
Parks, Donovan H., Chuvochina, Maria, Chaumeil, Pierre-Alain, Rinke, Christian, Mussig, Aaron J., Hugenholtz, Philip
Published in Nature biotechnology (01.09.2020)
Published in Nature biotechnology (01.09.2020)
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Journal Article
GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy
Parks, Donovan H, Chuvochina, Maria, Rinke, Christian, Mussig, Aaron J, Chaumeil, Pierre-Alain, Hugenholtz, Philip
Published in Nucleic acids research (07.01.2022)
Published in Nucleic acids research (07.01.2022)
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Journal Article
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
Parks, Donovan H, Chuvochina, Maria, Waite, David W, Rinke, Christian, Skarshewski, Adam, Chaumeil, Pierre-Alain, Hugenholtz, Philip
Published in Nature biotechnology (01.11.2018)
Published in Nature biotechnology (01.11.2018)
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Journal Article
A standardized archaeal taxonomy for the Genome Taxonomy Database
Rinke, Christian, Chuvochina, Maria, Mussig, Aaron J., Chaumeil, Pierre-Alain, Davín, Adrián A., Waite, David W., Whitman, William B., Parks, Donovan H., Hugenholtz, Philip
Published in Nature microbiology (01.07.2021)
Published in Nature microbiology (01.07.2021)
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Journal Article
Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
Parks, Donovan H., Rinke, Christian, Chuvochina, Maria, Chaumeil, Pierre-Alain, Woodcroft, Ben J., Evans, Paul N., Hugenholtz, Philip, Tyson, Gene W.
Published in Nature microbiology (01.11.2017)
Published in Nature microbiology (01.11.2017)
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Journal Article
Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes
Chuvochina, Maria, Mussig, Aaron J, Chaumeil, Pierre-Alain, Skarshewski, Adam, Rinke, Christian, Parks, Donovan H, Hugenholtz, Philip
Published in FEMS microbiology letters (17.01.2023)
Published in FEMS microbiology letters (17.01.2023)
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Journal Article
Evaluation of a concatenated protein phylogeny for classification of tailed double-stranded DNA viruses belonging to the order Caudovirales
Low, Soo Jen, Džunková, Mária, Chaumeil, Pierre-Alain, Parks, Donovan H., Hugenholtz, Philip
Published in Nature microbiology (01.08.2019)
Published in Nature microbiology (01.08.2019)
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Journal Article
GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database
Chaumeil, Pierre-Alain, Mussig, Aaron J, Hugenholtz, Philip, Parks, Donovan H
Published in Bioinformatics (15.11.2019)
Published in Bioinformatics (15.11.2019)
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Journal Article
GTDB-Tk v2: memory friendly classification with the genome taxonomy database
Chaumeil, Pierre-Alain, Mussig, Aaron J, Hugenholtz, Philip, Parks, Donovan H
Published in Bioinformatics (Oxford, England) (30.11.2022)
Published in Bioinformatics (Oxford, England) (30.11.2022)
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Journal Article
ArachnoServer 3.0: an online resource for automated discovery, analysis and annotation of spider toxins
Pineda, Sandy S, Chaumeil, Pierre-Alain, Kunert, Anne, Kaas, Quentin, Thang, Mike W C, Le, Lien, Nuhn, Michael, Herzig, Volker, Saez, Natalie J, Cristofori-Armstrong, Ben, Anangi, Raveendra, Senff, Sebastian, Gorse, Dominique, King, Glenn F
Published in Bioinformatics (15.03.2018)
Published in Bioinformatics (15.03.2018)
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Journal Article
Genome Taxonomy Database and SeqCode: Microbial Taxonomy and Nomenclature in the Age of Big Sequence Data
Chuvochina, Maria, Rinke, Christian, Mussig, Aaron, Chaumeil, Pierre-Alain, Parks, Donovan, Hugenholtz, Philip
Published in Biodiversity Information Science and Standards (16.08.2023)
Published in Biodiversity Information Science and Standards (16.08.2023)
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Journal Article
Putative genome contamination has minimal impact on the GTDB taxonomy
Mussig, Aaron J, Chaumeil, Pierre-Alain, Chuvochina, Maria, Rinke, Christian, Parks, Donovan H, Hugenholtz, Philip
Published in Microbial genomics (01.05.2024)
Published in Microbial genomics (01.05.2024)
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Journal Article
Author Correction: Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
Parks, Donovan H., Rinke, Christian, Chuvochina, Maria, Chaumeil, Pierre-Alain, Woodcroft, Ben J., Evans, Paul N., Hugenholtz, Philip, Tyson, Gene W.
Published in Nature microbiology (01.02.2018)
Published in Nature microbiology (01.02.2018)
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Journal Article
ArachnoServer 2.0, an updated online resource for spider toxin sequences and structures
Herzig, Volker, Wood, David L.A, Newell, Felicity, Chaumeil, Pierre-Alain, Kaas, Quentin, Binford, Greta J, Nicholson, Graham M, Gorse, Dominique, King, Glenn F
Published in Nucleic acids research (01.01.2011)
Published in Nucleic acids research (01.01.2011)
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Journal Article
Resolving widespread incomplete and uneven archaeal classifications based on a rank-normalized genome-based taxonomy
Rinke, Christian, Chuvochina, Maria, Mussig, Aaron J, Pierre-Alain Chaumeil, Davin, Adrian A, Waite, David W, Whitman, William B, Parks, Donovan H, Hugenholtz, Philip
Published in bioRxiv (17.02.2021)
Published in bioRxiv (17.02.2021)
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