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SeqCode: a nomenclatural code for prokaryotes described from sequence data.
Hedlund BP, Chuvochina M, Hugenholtz P, Konstantinidis KT, Murray AE, Palmer M, Parks DH, Probst AJ, Reysenbach AL, Rodriguez-R LM, Rossello-Mora R, Sutcliffe IC, Venter SN, Whitman WB. Hedlund BP, et al. Among authors: hugenholtz p. Nat Microbiol. 2022 Oct;7(10):1702-1708. doi: 10.1038/s41564-022-01214-9. Epub 2022 Sep 19. Nat Microbiol. 2022. PMID: 36123442 Free PMC article.
Insights into the phylogeny and coding potential of microbial dark matter.
Rinke C, Schwientek P, Sczyrba A, Ivanova NN, Anderson IJ, Cheng JF, Darling A, Malfatti S, Swan BK, Gies EA, Dodsworth JA, Hedlund BP, Tsiamis G, Sievert SM, Liu WT, Eisen JA, Hallam SJ, Kyrpides NC, Stepanauskas R, Rubin EM, Hugenholtz P, Woyke T. Rinke C, et al. Among authors: hugenholtz p. Nature. 2013 Jul 25;499(7459):431-7. doi: 10.1038/nature12352. Epub 2013 Jul 14. Nature. 2013. PMID: 23851394 Free article.
An expanded genomic representation of the phylum cyanobacteria.
Soo RM, Skennerton CT, Sekiguchi Y, Imelfort M, Paech SJ, Dennis PG, Steen JA, Parks DH, Tyson GW, Hugenholtz P. Soo RM, et al. Among authors: hugenholtz p. Genome Biol Evol. 2014 May;6(5):1031-45. doi: 10.1093/gbe/evu073. Genome Biol Evol. 2014. PMID: 24709563 Free PMC article.
STAMP: statistical analysis of taxonomic and functional profiles.
Parks DH, Tyson GW, Hugenholtz P, Beiko RG. Parks DH, et al. Among authors: hugenholtz p. Bioinformatics. 2014 Nov 1;30(21):3123-4. doi: 10.1093/bioinformatics/btu494. Epub 2014 Jul 23. Bioinformatics. 2014. PMID: 25061070 Free PMC article.
Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains.
Kyrpides NC, Hugenholtz P, Eisen JA, Woyke T, Göker M, Parker CT, Amann R, Beck BJ, Chain PS, Chun J, Colwell RR, Danchin A, Dawyndt P, Dedeurwaerdere T, DeLong EF, Detter JC, De Vos P, Donohue TJ, Dong XZ, Ehrlich DS, Fraser C, Gibbs R, Gilbert J, Gilna P, Glöckner FO, Jansson JK, Keasling JD, Knight R, Labeda D, Lapidus A, Lee JS, Li WJ, Ma J, Markowitz V, Moore ER, Morrison M, Meyer F, Nelson KE, Ohkuma M, Ouzounis CA, Pace N, Parkhill J, Qin N, Rossello-Mora R, Sikorski J, Smith D, Sogin M, Stevens R, Stingl U, Suzuki K, Taylor D, Tiedje JM, Tindall B, Wagner M, Weinstock G, Weissenbach J, White O, Wang J, Zhang L, Zhou YG, Field D, Whitman WB, Garrity GM, Klenk HP. Kyrpides NC, et al. Among authors: hugenholtz p. PLoS Biol. 2014 Aug 5;12(8):e1001920. doi: 10.1371/journal.pbio.1001920. eCollection 2014 Aug. PLoS Biol. 2014. PMID: 25093819 Free PMC article.
746 results