265 related articles for article (PubMed ID: 34648558)
21. 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
Nature; 2013 Jul; 499(7459):431-7. PubMed ID: 23851394
[TBL] [Abstract][Full Text] [Related]
22. Marker genes that are less conserved in their sequences are useful for predicting genome-wide similarity levels between closely related prokaryotic strains.
Lan Y; Rosen G; Hershberg R
Microbiome; 2016 May; 4(1):18. PubMed ID: 27138046
[TBL] [Abstract][Full Text] [Related]
23. Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.
Martinez-Liu L; Hernandez-Guerrero R; Rivera-Gomez N; Martinez-Nuñez MA; Escobar-Turriza P; Peeters E; Perez-Rueda E
PLoS One; 2021; 16(7):e0254025. PubMed ID: 34214112
[TBL] [Abstract][Full Text] [Related]
24. 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
Nucleic Acids Res; 2022 Jan; 50(D1):D785-D794. PubMed ID: 34520557
[TBL] [Abstract][Full Text] [Related]
25. Resolving prokaryotic taxonomy without rRNA: longer oligonucleotide word lengths improve genome and metagenome taxonomic classification.
Alsop EB; Raymond J
PLoS One; 2013; 8(7):e67337. PubMed ID: 23840870
[TBL] [Abstract][Full Text] [Related]
26. Classification and regression tree (CART) analyses of genomic signatures reveal sets of tetramers that discriminate temperature optima of archaea and bacteria.
Dyer BD; Kahn MJ; Leblanc MD
Archaea; 2008 Dec; 2(3):159-67. PubMed ID: 19054742
[TBL] [Abstract][Full Text] [Related]
27. Adding genomic 'foliage' to the tree of life.
Walker A
Nat Rev Microbiol; 2014 Feb; 12(2):78. PubMed ID: 24429416
[No Abstract] [Full Text] [Related]
28. SyntTax: a web server linking synteny to prokaryotic taxonomy.
Oberto J
BMC Bioinformatics; 2013 Jan; 14():4. PubMed ID: 23323735
[TBL] [Abstract][Full Text] [Related]
29. 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
Nat Microbiol; 2017 Nov; 2(11):1533-1542. PubMed ID: 28894102
[TBL] [Abstract][Full Text] [Related]
30. K-mer-Based Motif Analysis in Insect Species across
Cserhati M; Xiao P; Guda C
Comput Math Methods Med; 2019; 2019():4259479. PubMed ID: 31827584
[TBL] [Abstract][Full Text] [Related]
31. A large-scale evaluation of algorithms to calculate average nucleotide identity.
Yoon SH; Ha SM; Lim J; Kwon S; Chun J
Antonie Van Leeuwenhoek; 2017 Oct; 110(10):1281-1286. PubMed ID: 28204908
[TBL] [Abstract][Full Text] [Related]
32. Comparative Genomics for Prokaryotes.
Setubal JC; Almeida NF; Wattam AR
Methods Mol Biol; 2018; 1704():55-78. PubMed ID: 29277863
[TBL] [Abstract][Full Text] [Related]
33. Analysis of common k-mers for whole genome sequences using SSB-tree.
Choi JH; Cho HG
Genome Inform; 2002; 13():30-41. PubMed ID: 14571372
[TBL] [Abstract][Full Text] [Related]
34. UBCG: Up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction.
Na SI; Kim YO; Yoon SH; Ha SM; Baek I; Chun J
J Microbiol; 2018 Apr; 56(4):280-285. PubMed ID: 29492869
[TBL] [Abstract][Full Text] [Related]
35. AnnoView enables large-scale analysis, comparison, and visualization of microbial gene neighborhoods.
Wei X; Tan H; Lobb B; Zhen W; Wu Z; Parks DH; Neufeld JD; Moreno-Hagelsieb G; Doxey AC
Brief Bioinform; 2024 Mar; 25(3):. PubMed ID: 38747283
[TBL] [Abstract][Full Text] [Related]
36. Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea.
Makarova KS; Sorokin AV; Novichkov PS; Wolf YI; Koonin EV
Biol Direct; 2007 Nov; 2():33. PubMed ID: 18042280
[TBL] [Abstract][Full Text] [Related]
37. 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
PLoS Biol; 2014 Aug; 12(8):e1001920. PubMed ID: 25093819
[TBL] [Abstract][Full Text] [Related]
38. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies.
Yoon SH; Ha SM; Kwon S; Lim J; Kim Y; Seo H; Chun J
Int J Syst Evol Microbiol; 2017 May; 67(5):1613-1617. PubMed ID: 28005526
[TBL] [Abstract][Full Text] [Related]
39. Environment and taxonomy shape the genomic signature of prokaryotic extremophiles.
Arias PM; Butler J; Randhawa GS; Soltysiak MPM; Hill KA; Kari L
Sci Rep; 2023 Sep; 13(1):16105. PubMed ID: 37752120
[TBL] [Abstract][Full Text] [Related]
40. AnnoTree: visualization and exploration of a functionally annotated microbial tree of life.
Mendler K; Chen H; Parks DH; Lobb B; Hug LA; Doxey AC
Nucleic Acids Res; 2019 May; 47(9):4442-4448. PubMed ID: 31081040
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]
