Parks DH - Search Results

1

Putative genome contamination has minimal impact on the GTDB taxonomy.

Mussig AJ, Chaumeil PA, Chuvochina M, Rinke C, Parks DH, Hugenholtz P. Mussig AJ, et al. Among authors: parks dh. Microb Genom. 2024 May;10(5):001256. doi: 10.1099/mgen.0.001256. Microb Genom. 2024. PMID: 38809778 Free PMC article.

2

Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life.

Parks DH, Rinke C, Chuvochina M, Chaumeil PA, Woodcroft BJ, Evans PN, Hugenholtz P, Tyson GW. Parks DH, et al. Nat Microbiol. 2017 Nov;2(11):1533-1542. doi: 10.1038/s41564-017-0012-7. Epub 2017 Sep 11. Nat Microbiol. 2017. PMID: 28894102

3

A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life.

Parks DH, Chuvochina M, Waite DW, Rinke C, Skarshewski A, Chaumeil PA, Hugenholtz P. Parks DH, et al. Nat Biotechnol. 2018 Nov;36(10):996-1004. doi: 10.1038/nbt.4229. Epub 2018 Aug 27. Nat Biotechnol. 2018. PMID: 30148503

4

Evaluation of a concatenated protein phylogeny for classification of tailed double-stranded DNA viruses belonging to the order Caudovirales.

Low SJ, Džunková M, Chaumeil PA, Parks DH, Hugenholtz P. Low SJ, et al. Among authors: parks dh. Nat Microbiol. 2019 Aug;4(8):1306-1315. doi: 10.1038/s41564-019-0448-z. Epub 2019 May 20. Nat Microbiol. 2019. PMID: 31110365

5

GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database.

Chaumeil PA, Mussig AJ, Hugenholtz P, Parks DH. Chaumeil PA, et al. Among authors: parks dh. Bioinformatics. 2019 Nov 15;36(6):1925-7. doi: 10.1093/bioinformatics/btz848. Online ahead of print. Bioinformatics. 2019. PMID: 31730192 Free PMC article.

6

A complete domain-to-species taxonomy for Bacteria and Archaea.

Parks DH, Chuvochina M, Chaumeil PA, Rinke C, Mussig AJ, Hugenholtz P. Parks DH, et al. Nat Biotechnol. 2020 Sep;38(9):1079-1086. doi: 10.1038/s41587-020-0501-8. Epub 2020 Apr 27. Nat Biotechnol. 2020. PMID: 32341564

7

A standardized archaeal taxonomy for the Genome Taxonomy Database.

Rinke C, Chuvochina M, Mussig AJ, Chaumeil PA, Davín AA, Waite DW, Whitman WB, Parks DH, Hugenholtz P. Rinke C, et al. Among authors: parks dh. Nat Microbiol. 2021 Jul;6(7):946-959. doi: 10.1038/s41564-021-00918-8. Epub 2021 Jun 21. Nat Microbiol. 2021. PMID: 34155373

8

GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy.

Parks DH, Chuvochina M, Rinke C, Mussig AJ, Chaumeil PA, Hugenholtz P. Parks DH, et al. Nucleic Acids Res. 2022 Jan 7;50(D1):D785-D794. doi: 10.1093/nar/gkab776. Nucleic Acids Res. 2022. PMID: 34520557 Free PMC article.

9

GTDB-Tk v2: memory friendly classification with the genome taxonomy database.

Chaumeil PA, Mussig AJ, Hugenholtz P, Parks DH. Chaumeil PA, et al. Among authors: parks dh. Bioinformatics. 2022 Nov 30;38(23):5315-5316. doi: 10.1093/bioinformatics/btac672. Bioinformatics. 2022. PMID: 36218463 Free PMC article.

10

Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes.

Chuvochina M, Mussig AJ, Chaumeil PA, Skarshewski A, Rinke C, Parks DH, Hugenholtz P. Chuvochina M, et al. Among authors: parks dh. FEMS Microbiol Lett. 2023 Jan 17;370:fnad071. doi: 10.1093/femsle/fnad071. FEMS Microbiol Lett. 2023. PMID: 37480240 Free PMC article.

Save citations to file

Email citations

Send citations to clipboard

Add to Collections

Add to My Bibliography

Create a file for external citation management software

Your saved search

Your RSS Feed

My Custom Filters

Publication date

Text availability

Article attribute

Article type

Article Language

Species

Sex

Age

Other

100 results

Search Page

Filters