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Temporal patterns of fruit fly (Drosophila) evolution revealed by mutation clocks.
Tamura K, Subramanian S, Kumar S. Tamura K, et al. Mol Biol Evol. 2004 Jan;21(1):36-44. doi: 10.1093/molbev/msg236. Epub 2003 Aug 29. Mol Biol Evol. 2004. PMID: 12949132
Prospects for inferring very large phylogenies by using the neighbor-joining method.
Tamura K, Nei M, Kumar S. Tamura K, et al. Proc Natl Acad Sci U S A. 2004 Jul 27;101(30):11030-5. doi: 10.1073/pnas.0404206101. Epub 2004 Jul 16. Proc Natl Acad Sci U S A. 2004. PMID: 15258291 Free PMC article.
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0.
Tamura K, Dudley J, Nei M, Kumar S. Tamura K, et al. Mol Biol Evol. 2007 Aug;24(8):1596-9. doi: 10.1093/molbev/msm092. Epub 2007 May 7. Mol Biol Evol. 2007. PMID: 17488738
MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods.
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. Tamura K, et al. Mol Biol Evol. 2011 Oct;28(10):2731-9. doi: 10.1093/molbev/msr121. Epub 2011 May 4. Mol Biol Evol. 2011. PMID: 21546353 Free PMC article.
Statistics and truth in phylogenomics.
Kumar S, Filipski AJ, Battistuzzi FU, Kosakovsky Pond SL, Tamura K. Kumar S, et al. Mol Biol Evol. 2012 Feb;29(2):457-72. doi: 10.1093/molbev/msr202. Epub 2011 Aug 26. Mol Biol Evol. 2012. PMID: 21873298 Free PMC article. Review.
MEGA-CC: computing core of molecular evolutionary genetics analysis program for automated and iterative data analysis.
Kumar S, Stecher G, Peterson D, Tamura K. Kumar S, et al. Bioinformatics. 2012 Oct 15;28(20):2685-6. doi: 10.1093/bioinformatics/bts507. Epub 2012 Aug 24. Bioinformatics. 2012. PMID: 22923298 Free PMC article.
Estimating divergence times in large molecular phylogenies.
Tamura K, Battistuzzi FU, Billing-Ross P, Murillo O, Filipski A, Kumar S. Tamura K, et al. Proc Natl Acad Sci U S A. 2012 Nov 20;109(47):19333-8. doi: 10.1073/pnas.1213199109. Epub 2012 Nov 5. Proc Natl Acad Sci U S A. 2012. PMID: 23129628 Free PMC article.
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