Publications

  1. Guiblet, W.M., Zhao, K., O’Brien, S.J., Massey S., Roca. A.L. and K. Oleksyk. 2014. SmileFinder: a resampling-based platform to evaluate signatures of selection from genome-wide sets of matching allele frequency data between populations. GigaScience (in press)
  2. Svitin, A , Sergey Malov, N. Cherkasov, Geerts, P. Rotkevich, M., Dobrynin, P., Shevchenko, A., Guan, L., Troyer, J, Hendrickson-Lambert, S., Hutcheson Dilks, H., Oleksyk, T.K., Donfield, S., Gomperts, E., Jabs, D.A., Van Natta, P. M., Harrigan, R., Brumme, Z.L. and O’Brien, S.J.. 2014. GWATCH: a web platform for automated gene association discovery analysis. GigaScience (in press)
  3. Afanador, Y., A Velez-Valentín, J., Valentín de la Rosa, R., Martínez-Cruzado, J.-C.,vonHoldt, B., and Oleksyk, T.K. 2014 Isolation and characterization of microsatellite loci in the critically endangered Puerto Rican parrot (Amazona vittata). Conservation Genetics Resources (in press)
  4. Gravel, S., Zakharia, F., Byrnes, J.K., Muzzio, M., Moreno-Estrada, A. Rodriguez-Flores, A.L., Kenny, E.E., Gignoux, C.R., Maples, B.K., Guiblet, W.G., Dutil, J., Sandoval, K., Bedoya, G., The 1000 Genomes Project, Oleksyk, T.K., Ruiz-Linares, A., Burchard, E.G., Martinez-Cruzado, J.C., and Bustamante, CD. 2013. Reconstructing Native American Migrations from Whole-genome and Whole-exome Data. PLoS Genetics. 9(12) e1004023
  5. Díaz-Lameiro AM, Oleksyk TK, Bird-Picó FJ, Martínez-Cruzado JC. 2013. Colonization of islands in the Mona Passage by endemic dwarf geckoes (genus Sphaerodactylus) reconstructed with mitochondrial phylogeny. Ecology and Evolution. 3(13):4488-500
  6. Majeske, A,M., Oleksyk, T.K., Smith C.L., 2012. The Sp185/333 immune response genes and proteins are expressed in cells dispersed within all major organs of the adult purple sea urchin. Innate Immunity 19 (6) 569-587
  7. Zhao, K., Ishida, Y., Oleksyk, TK., Winkler CA, and Roca AL, 2012. Evidence for selection at HIV host susceptibility genes in a West Central African human population. BMC Evolutionary Biology 12:237
  8. Oleksyk TK, Pombert JF, Siu D, Mazo-Vargas A, Ramos B, Guiblet W, Afanador Y, Ruiz-Rodriguez CT, Nickerson ML, Logue D., Figueroa L., and Martinez-Cruzado, JC. 2012. A Locally Funded Puerto Rican Parrot (Amazona vittata) Genome Sequencing Project Increases Avian Data and Advances Young Researcher Education. GigaScience, 1:14
  9. The 1000 Genomes Project Consortium. 2012The 1000 Genomes Project Consortium. 2012. An integrated map of genetic variation from 1,092 human genomes. Nature 491:56-65
  10. Ishida Y, Oleksyk TK, Georgiadis NJ, David VA, Zhao K, et al. 2011Reconciling Apparent Conflicts between Mitochondrial and Nuclear Phylogenies in African Elephants. PLoS ONE 6(6): e20642
  11. Via M, Gignoux CR, Roth L, Fejerman L, Galanter J, Choudhry S, Toro-Labrador G, Viera-Vera J, Oleksyk TK, Beckman K, Ziv E, Risch N, Burchard EG, and Martínez-Cruzado JC. 2010. Geography and history shape fine-scale genomic admixture patterns in the island of Puerto Rico. PLoS One. 2011 6(1):e16513.
  12. Genovese G, Friedman DJ, Ross MD, Lecordier L, Uzureau P, Freedman BI, Bowden DW, Langefeld CD, Oleksyk TK, Uscinski Knob AL, Bernhardy AJ, Hicks PJ, Nelson GW, Vanhollebeke B, Winkler CA, Kopp JB, Pays E, Pollak MR. 2010. Association of trypanolytic ApoL1 variants with kidney disease in African Americans. Science. 329(5993):841-5.
  13. Oleksyk TK, O’Brien SJ and Smith MW. 2010. Scanning genomes for the footprints of historic selection. Phil Trans R Soc B 365:185-205
  14. Oleksyk TK, Nelson GW, An P, Kopp JB and Winkler CA. 2010. Worldwide distribution of the MYH9 kidney disease susceptibility alleles and haplotypes: evidence of historical selection in Africa. PLoS One. 5(7):e11474
  15. Winkler CA, Nelson G, Oleksyk TK, Nava MB, Kopp JB. 2010. Genetics of focal segmental glomerulosclerosis and human immunodeficiency virus-associated collapsing glomerulopathy: the role of MYH9 genetic variation. Semin Nephrol. 30(2):111-25
  16. Volfovsky N, Oleksyk TK, Cruz KC, Truelove AL, Stephens RM, and Smith MW. 2009. Chimpanzee chromosome 23 vs. human 22: genomic insertion, deletion and ancestral indel polymorphisms. BMC Genomics, 10 (51)
  17. Oleksyk TK, Shrestha S, Truelove AL, O’Brien SJ, and Smith MW. 2009. Association of extended IL10 haplotypes with HIV progression to AIDS. Genes Immun 10(4):309-22
  18. Kopp JB., Smith MW, Johnson R, Freedman BI, Bowden DW, Oleksyk TK, McKenzie LM, Ahuja TS, Cho ME, Dart RA, Kimmel PL, Korbet SM, Michael DM, Mokryzcki MH, Schelling JR, Simon E, Trachtman H, Vlahov D, Hiroshi K, Nelson GW, and Winkler CA. 2008. Genome wide admixture mapping identifies MYH9 as a major effect risk gene for FSGS in African-Americans. Nature Genet, 40(10):1175-84
  19. Oleksyk TK., Zhao K, O’Brien SJ, and Smith MW. 2008. Identifying selected regions from heterozygosity and divergence using a light-coverage genomic dataset from two human populations PLoS One, 3(3): e1712
  20. Truelove AL, Oleksyk TK, Shrestha S, Thio CL, Goedert JJ, Donfield SM, Thomas DL, O’Brien SJ, and Smith MW. 2008. Hepatitis B viral persistence is associated with polymorphisms in the IL10 and IL20 Intl J of Immunogenet, 35(3):255-64
  21. Shrestha, S., S.A Strathdee, N. Galai, K. Oleksyk, D. Fallin, D. Schaid, D. Vlahov, D. Thomas, S. J. O’Brien, and M.W. Smith. 2006. Behavioral Risk Exposure and Host Genetics of Susceptibility to HIV-1 Infection. J of Infect Dis, 193:16-26,
  22. Oleksyk, TK, Thio CL, Truelove AL, Goedert JJ, Donfield SM, Kirk GD, Thomas DL, O’Brien SJ, and Smith MW. 2005. Single nucleotide polymorphisms and haplotypes in the IL10 region associated with HCV clearance. Genes Immun, 6(4):347-57
  23. Oleksyk TK, Goldfarb LG, Shrestha S, O’Brien SJ, and Smith MW. 2004. Associations of the inflammatory gene polymorphisms and the Viliuisk Encephalomyelitis syndrome. Eur J Immunogenet, 31:121-128, 2004

Laboratory of Genomic Diversity