List of Faculty Publications

Below is a list of Faculty publications imported from PubMed or manually added. By default, publications are sorted by year with titles displayed in ascending alphabetical order.
Shortcuts: Wühr, Martin | Wingreen, Ned | Wieschaus, Eric | Troyanskaya, Olga | Tilghman, Shirley | Storey, John | Singh, Mona | Shvartsman, Stanislav | Shaevitz, Joshua | Rabinowitz, Joshua | Murphy, Coleen | Levine, Michael {Levine, Michael S.} | Gregor, Thomas | Botstein, David | Bialek, William | Ayroles, Julien | Andolfatto, Peter | Akey, Joshua

Filters: Keyword is Evolution, Molecular and Author is Andolfatto, Peter  [Clear All Filters]
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Evolution, Molecular
K. Thornton, Bachtrog, D., and Andolfatto, P., X chromosomes and autosomes evolve at similar rates in Drosophila: no evidence for faster-X protein evolution., Genome Res, vol. 16, no. 4, pp. 498-504, 2006.
J. Parsch, Novozhilov, S., Saminadin-Peter, S. S., Wong, K. M., and Andolfatto, P., On the utility of short intron sequences as a reference for the detection of positive and negative selection in Drosophila., Mol Biol Evol, vol. 27, no. 6, pp. 1226-34, 2010.
D. Bachtrog and Andolfatto, P., Selection, recombination and demographic history in Drosophila miranda., Genetics, vol. 174, no. 4, pp. 2045-59, 2006.
T. T. Hu, Eisen, M. B., Thornton, K. R., and Andolfatto, P., A second-generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence., Genome Res, vol. 23, no. 1, pp. 89-98, 2013.
P. R. Haddrill, Bachtrog, D., and Andolfatto, P., Positive and negative selection on noncoding DNA in Drosophila simulans., Mol Biol Evol, vol. 25, no. 9, pp. 1825-34, 2008.
D. J. Wilson, Hernandez, R. D., Andolfatto, P., and Przeworski, M., A population genetics-phylogenetics approach to inferring natural selection in coding sequences., PLoS Genet, vol. 7, no. 12, p. e1002395, 2011.
G. Sella, Petrov, D. A., Przeworski, M., and Andolfatto, P., Pervasive natural selection in the Drosophila genome?, PLoS Genet, vol. 5, no. 6, p. e1000495, 2009.
P. R. Haddrill, Charlesworth, B., Halligan, D. L., and Andolfatto, P., Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content., Genome Biol, vol. 6, no. 8, p. R67, 2005.
D. L. Halligan, Eyre-Walker, A., Andolfatto, P., and Keightley, P. D., Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila., Genome Res, vol. 14, no. 2, pp. 273-9, 2004.
Y. Zhen, Aardema, M. L., Medina, E. M., Schumer, M., and Andolfatto, P., Parallel molecular evolution in an herbivore community., Science, vol. 337, no. 6102, pp. 1634-7, 2012.
P. Andolfatto, J Scriber, M., and Charlesworth, B., No association between mitochondrial DNA haplotypes and a female-limited mimicry phenotype in Papilio glaucus., Evolution, vol. 57, no. 2, pp. 305-16, 2003.
Y. Zhen and Andolfatto, P., Methods to detect selection on noncoding DNA., Methods Mol Biol, vol. 856, pp. 141-59, 2012.
P. Andolfatto, Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome., Genome Res, vol. 17, no. 12, pp. 1755-62, 2007.
D. Garrigan, Kingan, S. B., Geneva, A. J., Andolfatto, P., Clark, A. G., Thornton, K. R., and Presgraves, D. C., Genome sequencing reveals complex speciation in the Drosophila simulans clade., Genome Res, vol. 22, no. 8, pp. 1499-511, 2012.
M. Rebeiz, Ramos-Womack, M., Jeong, S., Andolfatto, P., Werner, T., True, J., Stern, D. L., and Carroll, S. B., Evolution of the tan locus contributed to pigment loss in Drosophila santomea: a response to Matute et al., Cell, vol. 139, no. 6, pp. 1189-96, 2009.
J. Cande, Andolfatto, P., Prud'homme, B., Stern, D. L., and Gompel, N., Evolution of multiple additive loci caused divergence between Drosophila yakuba and D. santomea in wing rowing during male courtship., PLoS One, vol. 7, no. 8, p. e43888, 2012.
A. S. Putnam, J Scriber, M., and Andolfatto, P., Discordant divergence times among Z-chromosome regions between two ecologically distinct swallowtail butterfly species., Evolution, vol. 61, no. 4, pp. 912-27, 2007.
B. Callahan, Neher, R. A., Bachtrog, D., Andolfatto, P., and Shraiman, B. I., Correlated evolution of nearby residues in Drosophilid proteins., PLoS Genet, vol. 7, no. 2, p. e1001315, 2011.
T. Slotte, Hazzouri, K. M., J Ågren, A., Koenig, D., Maumus, F., Guo, Y. - L., Steige, K., Platts, A. E., Escobar, J. S., L Newman, K., Wang, W., Mandáková, T., Vello, E., Smith, L. M., Henz, S. R., Steffen, J., Takuno, S., Brandvain, iv, Y., Coop, G., Andolfatto, P., Hu, T. T., Blanchette, M., Clark, R. M., Quesneville, H., Nordborg, M., Gaut, B. S., Lysak, M. A., Jenkins, J., Grimwood, J., Chapman, J., Prochnik, S., Shu, S., Rokhsar, D., Schmutz, J., Weigel, D., and Wright, S. I., The Capsella rubella genome and the genomic consequences of rapid mating system evolution., Nat Genet, vol. 45, no. 7, pp. 831-5, 2013.
J. D. Jensen, Thornton, K. R., and Andolfatto, P., An approximate bayesian estimator suggests strong, recurrent selective sweeps in Drosophila., PLoS Genet, vol. 4, no. 9, p. e1000198, 2008.
P. Andolfatto, Adaptive evolution of non-coding DNA in Drosophila., Nature, vol. 437, no. 7062, pp. 1149-52, 2005.