HyPhy: hypothesis testing using phylogenies - PubMed

HyPhy: hypothesis testing using phylogenies

Sergei L Kosakovsky Pond et al. Bioinformatics. 2005.

Abstract

Similar articles

• VISTAL--a new 2D visualization tool of protein 3D structural alignments.

  Kolodny R, Honig B. Kolodny R, et al. Bioinformatics. 2006 Sep 1;22(17):2166-7. doi: 10.1093/bioinformatics/btl353. Epub 2006 Jul 12. Bioinformatics. 2006. PMID: 16837525

• Bellerophon: a program to detect chimeric sequences in multiple sequence alignments.

  Huber T, Faulkner G, Hugenholtz P. Huber T, et al. Bioinformatics. 2004 Sep 22;20(14):2317-9. doi: 10.1093/bioinformatics/bth226. Epub 2004 Apr 8. Bioinformatics. 2004. PMID: 15073015

• Intersect: identification and visualization of overlaps in database search results.

  Pegg SC, Novak WR, Babbitt PC. Pegg SC, et al. Bioinformatics. 2003 Oct 12;19(15):1997-9. doi: 10.1093/bioinformatics/btg256. Bioinformatics. 2003. PMID: 14555634

• MAGOS: multiple alignment and modelling server.

  Garnier N, Friedrich A, Bolze R, Bettler E, Moulinier L, Geourjon C, Thompson JD, Deléage G, Poch O. Garnier N, et al. Bioinformatics. 2006 Sep 1;22(17):2164-5. doi: 10.1093/bioinformatics/btl349. Epub 2006 Jul 4. Bioinformatics. 2006. PMID: 16820425

• Phylogenomic inference of protein molecular function: advances and challenges.

  Sjölander K. Sjölander K. Bioinformatics. 2004 Jan 22;20(2):170-9. doi: 10.1093/bioinformatics/bth021. Bioinformatics. 2004. PMID: 14734307 Review.

Cited by

• Epidemiological dynamics and molecular characterization of HIV drug resistance in eastern China from 2020 to 2023.

  Zhu M, Sun Z, Zhang X, Luo W, Wu S, Ye L, Xu K, Chen J. Zhu M, et al. Front Microbiol. 2024 Oct 18;15:1475548. doi: 10.3389/fmicb.2024.1475548. eCollection 2024. Front Microbiol. 2024. PMID: 39493858 Free PMC article.

• Antigenic cartography reveals complexities of genetic determinants that lead to antigenic differences among pandemic GII.4 noroviruses.

  Kendra JA, Tohma K, Ford-Siltz LA, Lepore CJ, Parra GI. Kendra JA, et al. Proc Natl Acad Sci U S A. 2021 Mar 16;118(11):e2015874118. doi: 10.1073/pnas.2015874118. Proc Natl Acad Sci U S A. 2021. PMID: 33836574 Free PMC article.

• Dinitrogen fixation is restricted to the terminal heterocysts in the invasive cyanobacterium Cylindrospermopsis raciborskii CS-505.

  Plominsky ÁM, Larsson J, Bergman B, Delherbe N, Osses I, Vásquez M. Plominsky ÁM, et al. PLoS One. 2013;8(2):e51682. doi: 10.1371/journal.pone.0051682. Epub 2013 Feb 6. PLoS One. 2013. PMID: 23405062 Free PMC article.

• No evidence for accumulation of deleterious mutations and fitness degradation in clonal fish hybrids: Abandoning sex without regrets.

  Kočí J, Röslein J, Pačes J, Kotusz J, Halačka K, Koščo J, Fedorčák J, Iakovenko N, Janko K. Kočí J, et al. Mol Ecol. 2020 Aug;29(16):3038-3055. doi: 10.1111/mec.15539. Epub 2020 Aug 4. Mol Ecol. 2020. PMID: 32627290 Free PMC article.

• Distinct evolutionary trajectories of V1R clades across mouse species.

  Miller CH, Campbell P, Sheehan MJ. Miller CH, et al. BMC Evol Biol. 2020 Aug 8;20(1):99. doi: 10.1186/s12862-020-01662-z. BMC Evol Biol. 2020. PMID: 32770934 Free PMC article.

Publication types

MeSH terms

LinkOut - more resources

• Full Text Sources

  • Ovid Technologies, Inc.
  • Silverchair Information Systems

• Other Literature Sources

  • The Lens - Patent Citations Database