Kosakovsky Pond SL - Search Results

1

RELAX: detecting relaxed selection in a phylogenetic framework.

Wertheim JO, Murrell B, Smith MD, Kosakovsky Pond SL, Scheffler K. Wertheim JO, et al. Among authors: kosakovsky pond sl. Mol Biol Evol. 2015 Mar;32(3):820-32. doi: 10.1093/molbev/msu400. Epub 2014 Dec 23. Mol Biol Evol. 2015. PMID: 25540451 Free PMC article.

2

Not so different after all: a comparison of methods for detecting amino acid sites under selection.

Kosakovsky Pond SL, Frost SD. Kosakovsky Pond SL, et al. Mol Biol Evol. 2005 May;22(5):1208-22. doi: 10.1093/molbev/msi105. Epub 2005 Feb 9. Mol Biol Evol. 2005. PMID: 15703242

3

Automated phylogenetic detection of recombination using a genetic algorithm.

Kosakovsky Pond SL, Posada D, Gravenor MB, Woelk CH, Frost SD. Kosakovsky Pond SL, et al. Mol Biol Evol. 2006 Oct;23(10):1891-901. doi: 10.1093/molbev/msl051. Epub 2006 Jul 3. Mol Biol Evol. 2006. PMID: 16818476

4

Evidence for positive selection on a sexual reproduction gene in the diatom genus Thalassiosira (Bacillariophyta).

Sorhannus U, Kosakovsky Pond SL. Sorhannus U, et al. Among authors: kosakovsky pond sl. J Mol Evol. 2006 Aug;63(2):231-9. doi: 10.1007/s00239-006-0016-z. Epub 2006 Jul 7. J Mol Evol. 2006. PMID: 16830090

5

Evolutionary model selection with a genetic algorithm: a case study using stem RNA.

Kosakovsky Pond SL, Mannino FV, Gravenor MB, Muse SV, Frost SD. Kosakovsky Pond SL, et al. Mol Biol Evol. 2007 Jan;24(1):159-70. doi: 10.1093/molbev/msl144. Epub 2006 Oct 12. Mol Biol Evol. 2007. PMID: 17038448

6

A maximum likelihood method for detecting directional evolution in protein sequences and its application to influenza A virus.

Kosakovsky Pond SL, Poon AF, Leigh Brown AJ, Frost SD. Kosakovsky Pond SL, et al. Mol Biol Evol. 2008 Sep;25(9):1809-24. doi: 10.1093/molbev/msn123. Epub 2008 May 29. Mol Biol Evol. 2008. PMID: 18511426 Free PMC article.

7

Benchmarking multi-rate codon models.

Delport W, Scheffler K, Gravenor MB, Muse SV, Kosakovsky Pond S. Delport W, et al. PLoS One. 2010 Jul 21;5(7):e11587. doi: 10.1371/journal.pone.0011587. PLoS One. 2010. PMID: 20657773 Free PMC article.

8

Correcting the bias of empirical frequency parameter estimators in codon models.

Kosakovsky Pond S, Delport W, Muse SV, Scheffler K. Kosakovsky Pond S, et al. PLoS One. 2010 Jul 30;5(7):e11230. doi: 10.1371/journal.pone.0011230. PLoS One. 2010. PMID: 20689581 Free PMC article.

9

CodonTest: modeling amino acid substitution preferences in coding sequences.

Delport W, Scheffler K, Botha G, Gravenor MB, Muse SV, Kosakovsky Pond SL. Delport W, et al. Among authors: kosakovsky pond sl. PLoS Comput Biol. 2010 Aug 19;6(8):e1000885. doi: 10.1371/journal.pcbi.1000885. PLoS Comput Biol. 2010. PMID: 20808876 Free PMC article.

10

A random effects branch-site model for detecting episodic diversifying selection.

Kosakovsky Pond SL, Murrell B, Fourment M, Frost SD, Delport W, Scheffler K. Kosakovsky Pond SL, et al. Mol Biol Evol. 2011 Nov;28(11):3033-43. doi: 10.1093/molbev/msr125. Epub 2011 Jun 13. Mol Biol Evol. 2011. PMID: 21670087 Free PMC article.

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