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Kalendar, R., J. Tanskanen, S. Immonen, E. Nevo and A. H. Schulman. 2000. Genome evolution of wild barley (Hordeum spontaneum) by BARE-1 retrotransposon dynamics in response to sharp microclimatic divergence. Proc. Natl. Acad. Sci. USA 97:6603-6607.

Karanth, K. P., T. Delefosse, B. Rakotosamimanana, T. J. Parsons, and A. D. Yoder. 2005. Ancient DNA from giant extinct lemurs confirms single origin of Malagasy primates. Proc. Natl. Acad. Sci USA 102:5090-5095.

Katoh, K., K. Kuma, H. Toh and T. Miyata. 2005. MAFFT Version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Research. 33:511-518.

Katoh, K., K. Misawa, K. Kuma and T. Miyata. 2002. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Research. 30:3059-3066.

Kazazian, H. H. 2004. Mobile elements: drivers of genome evolution. Science 303:1626-1632.

Ketting, R. F., T. H. Haverkamp, H. G. van Luenen, and R. H. Plasterk. 1999. Mut-7 of C. elegans, required for transposon silencing and RNA interference, is a homolog of Werner syndrome helicase and RNaseD. Cell 99:133-141.

Kidwell, M. G. 1992. Horizontal transfer. Curr. Opin. Genet. Dev. 2:868-73.

Kidwell, M. G. 1993. Lateral transfer in natural populations of eukaryotes. Annu Rev Genet. 27:235-256.

Kim, J. M., S. Vanguri, J. D. Boeke, A. Gabriel, and D. F. Voytas. 1998. Transposable elements and genome organization: a comprehensive survey of retrotransposons revealed by the complete Saccharomyces cerevisiae genome sequence. Genome Res. 8:464-478.

Kimura, M. 1968. Evolutionary rate at the molecular level. Nature 217:624-6.

Kimura, M., and T. Ota. 1971. Protein polymorphism as a phase of molecular evolution. Nature 229:467-9.

Kimura, M. 1980. A simple model for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16:111-120.

Kimura, M. 1981. Estimation of evolutionary distances between homologous nucleotide sequences. Proc. Natl. Acad. Sci. USA. 78:454-458.

Kingan SB, Tatar M, Rand DM. Reduced polymorphism in the chimpanzee semen coagulating protein, semenogelin I. J Mol Evol. 2003 Aug;57(2):159-69.

Kishino, H. and M. Hasegawa. 1989. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea. J. Mol. Evol. 29:170-179.

Kishino, H. and M. Hasegawa. 1990. Converting distance to time: application to human evolution. Methods Enzymol. 183:550-570.

Kishino, H., T. Miyata, and M. Hasegawa. 1990. Maximum likelihood inference of protein phylogeny and the origin of the chloroplasts. J. Mol. Evol. 31:151-160.

Kishino, H. J. L. Thorne, and W. J. Bruno. 2001. Performance of a divergence time estimation method under a probabilistic model of rate evolution. Mol. Biol. Evol. 18:352-361.

Klicka, J. and R. Zink. 1997. The importance of recent ice ages in speciation: a failed paradigm. Science 277:1666-1669.

Knight, S. A., S. Labbe, L. F. Kwon, D. J. Kosman, D. J. Thiele. 1996. A widespread transposable element masks expression of a yeast copper transport gene. Genes Dev. 10:1917-1929.

Kondrashov A. S. 1988. Deleterious mutations and the evolution of sexual reproduction. Nature. 336, 435 - 440.

Kosakovsky Pond SL and Frost SDW. 2005. Not so different after all: a comparison of methods for detecting amino acid sites under selection. Mol. Biol. Evol. 22:1208-1222.

Koshi, J. M. and R. A. Goldstein. 1996. Probabilistic reconstruction of ancestral protein sequences. J. Mol. Evol. 42:313-320.

Kreitman, M. 1983. Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster. Nature 304:412-7.

Kreitman, M., and R. R. Hudson. 1991. Inferring the evolutionary histories of the Adh and Adh-dup loci in Drosophila melanogaster from patterns of polymorphism and divergence. Genetics 127:565-82.

Kuhner, M. K. 2006. LAMARC 2.0: maximum likelihood and Bayesian estimation of population parameters. Bioinformatics 22:768-770.

Kuhner, M. K., P. Beerli, J. Yamato, and J. Felsenstein. 2000. Usefulness of single nucleotide polymorphism (SNP) data for estimating population parameters. Genetics 156:439-447.

Kuhner, M. K., J. Yamato, and J. Felsenstein. 1995. Estimating effective population size and mutation rate from sequence data using Metropolis-Hastings sampling. Genetics 140:1421-1430.

Kuhner, M. K., J. Yamato, and J. Felsenstein 1998. Maximum likelihood estimates of population growth rates based on the coalescent. Genetics 149:429-434.

Kuhner, M. K., J. Yamato, and J. Felsenstein 2001. Maximum likelihood estimation of recombination rates from population data. Genetics 156:1393-1401.

Kumar, S., Tamura, K., and Nei, M. 1993. MEGA: Molecular evolutionary genetics analysis, version 1.01. Pennsylvania State Univ., University Park, PA.

Kunsch, H. R. 1989. The jackknife and the bootstrap for general stationary observations. Annals of Statistics 17:1217-1241.

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