Christopher J. Basten

Syngenta Biotechnology, Inc. PO Box 12257
3054 E Cornwallis Road
Research Triangle Park NC 27709-2257
Phone: (919)597-3021
Fax: (919)765-5132
Email: christopher.basten at
Personal Email: cbasten at
URL: Chris Basten/Carolyn Lee

Chris is a Computational Biologist in Integrated Genome Biology at Syngenta Biotechnology, Inc. Chris will continue to monitor basten at to answer questions relating to work he did at NCSU, including QTL Cartographer, cytonuclear disequilibrium and forensic statistics.

Background and Research Interests

Chris has a Ph.D. in Genetics and Cell Biology from Washington State University. His Ph.D. work was under the direction of Michael Moody and concerned molecular evolution in prokaryotes. He has been fortunate to travel extensively during his postdoctoral years. After graduating from Washington State University, he worked with Bruce S. Weir for two and one half years at North Carolina State University. From there he went to Japan to work with Tomoko Ohta at the National Institute of Genetics. That work was funded by the Japan Society for the Promotion of Science. During his time in Japan he also went to China to lecture at Zhejiang Agricultural University in Hangzhou and at the Chinese National Institute of Genetics in Beijing. Upon his return to the United States, he worked with Marjorie Asmussen at the University of Georgia. In 1993 he returned to North Carolina State University, where he stayed until October, 2005.

Chris is the main programmer for QTL Cartographer, a set of programs to map QTLs (Quantitative Trait Loci) in inbred populations using a genetic map of molecular markers. The package consists of a suite of programs written in C for simulation studies of backcross and F2 designs and the analysis of either simulated or real data. Other experimental designs can be easily incorporated. The mapping program uses a dynamic algorithm that allows a host of statistical models to be fitted and compared, including various gene actions (additive, dominance and epistasis), QTL-environment interactions, pleiotropic effects and close linkage. The package also implements the simultaneous mapping of multiple traits using the interval or composite interval mapping methods. The results can be displayed graphically, or printed using Gnuplot, or alternatively can be imported into any graphics package on any computing platform. The programs are written for the Unix operating system but the code for most of the programs in the package has been ported to the Macintosh and Microsoft Windows operating systems.

C.J. Basten's Publications

  1. Moody, M. E. and C J. Basten, 1990. The evolution of latent genes in subdivided populations. Genetics 124:187-197.
  2. Basten, C. J. and B. S. Weir, 1990. Effect of gene conversion on variances of digenic identity measures. Theoret. Pop. Biol. 38:125-148.
  3. Weir, B. S. and C. J. Basten, 1990. Sampling strategies for distances between DNA sequences. Biometrics 46:551-582.
  4. Basten, C J. and M. E. Moody, 1991. A branching process model for the evolution of transposons incorporating selection. J. Math. Biol. 29:743-761.
  5. Basten, C. J. and T. Ohta, 1992. Simulation study of a multigene family, with special reference to the evolution of compensatory advantageous mutations. Genetics 132:247-252.
  6. Ohta, T. and C.J. Basten, 1992. Gene conversion generates hypervariability at the variable regions of kallikreins and their inhibitors. Mol. Phyl. Evol. 1:87-90.
  7. Basten, C. J. and B. S. Weir, 1993. Effect of gene conversion on measures of digenic disequilibrium IN N. Takahata, editor, Proceedings of the 17th Taniguchi Symposium on Population Paleogenetics. Japan Scientific Societies Press, Tokyo.
  8. Basten, C.J. and M. A. Asmussen, 1993. A theoretical framework for estimating mitotic stability in conidial fungi. Genetics 134:361-368.
  9. C. J. Basten, B. S. Weir and Z.-B. Zeng, 1994. Zmap--a QTL cartographer IN C. Smith, J. S. Gavora, B. Benkel, J. Chesnais, W. Fairfull, J. P. Gibson, B. W. Kennedy and E. B. Burnside, editors, Proceedings of the 5th World Congress on Genetics Applied to Livestock Production: Computing Strategies and Software. Organizing Committee, 5th World Congress on Genetics Applied to Livestock Production, Guelph, Ontario, Canada.
  10. Asmussen, M. A. and C. J. Basten, 1994. Sampling theory for cytonuclear disequilibria. Genetics 138:1351-1363.
  11. Asmussen, M. A. and C. J. Basten, 1996. Constraints and normalized measures for cytonuclear disequilibria. Heredity, 76:207-214.
  12. Sites, J. W., C. J. Basten and M. A. Asmussen, 1996. Cytonuclear genetic structure of a hybrid zone in lizards of the Sceloporus grammicus complex (Sauria, Phrynosomatidae). Mol. Ecol. 5:379-392.
  13. Jenkins, T. M., C. J. Basten and W. A. Anderson, 1996. Mitochondrial gene divergence of Colombian Drosophila pseudoobscura. Mol. Biol. Evol., 13:1266-1275.
  14. Basten, C. J. and M. A. Asmussen, 1997. The exact test for cytonuclear disequilibria. Genetics 146:1165-1171.
  15. Jenkins, T. M., C. J. Basten, R. Dean, S. E. Mitchell, S. Kresovich and B. T. Forschler, 1999. Matriarchal genetic structure of subterranean termite (Isoptera: Rhinotermitidae) populations. Sociobiology 32:239-263.
  16. Tomsey, C. S., C. J. Basten, B. Budowle, B. A. Giles, S. Ermlick and S. Gotwald, 1999. Use of combined frequencies for RFLP and PCR based loci in determining match probability. J. Forens. Sci. 44:385-388.
  17. Jenkins, T.M., C. J. Basten, S. Kresovich and B. T. Forschler, 1999. Mitochondrial gene sequence questions Reticulitermes sp. social structure (Isoptera: Rhinotermitidae). Sociobiology, 34:161-172.
  18. Zeng, Z.-B., C.-H. Kao and C. J. Basten, 1999. Estimating the genetic architecture of quantitative traits. Genetical Research, 74:279-290.
  19. Buckleton, J. S., J. M. Curran and C. J. Basten, 1999. Evaluating the statistical significance of single band profiles in VNTR analyses. Science and Justice, 40: 27-33.
  20. Jenkins, T.M., M. I. Haverty, C. J. Basten and B. T. Forschler, 2000. Correlation of mitochondrial haplotypes with cuticular hydrocarbon phenotypes of sympatric Reticulitermes species from the southeastern United States. J. Chem. Ecol., 26:1525-1542.
  21. Basten, C.J., 2000. Review of Genetics and the Analysis of Quantitative Traits by M. Lynch and B. Walsh. Theoret. Pop. Biol. 57:307.
  22. Rauh, B.L., C. J. Basten and E. S. Buckler IV, 2002. Quantitative trait loci analysis of growth response to varying nitrogen sources in Arabidopsis thaliana. Theor. Appl. Genet. 104:743-750.
  23. Stuurman, J., M. E. Hoballah, L. Broger, J. Moore, C. J. Basten and C. Kuhlemeier, 2004. Dissection of pollination syndromes in Petunia. Genetics, 68:1585-1599.
  24. Halvorsen, J. and C. J. Basten, 2005. A PCR multiplex and database for forensic DNA identification of dogs. J. Forens. Sci., 50:352-363.
  25. Kirst, M. , C. J. Basten, A. A. Myburg, Z.-B. Zeng and R. R. Sederoff, 2005. Genetic architecture of transcript level variation in differentiating xylem of an Eucalyptus hybrid. Genetics, 169:2295-2303.
  26. Halvorsen, J. and C. J. Basten, 2005. Forensic DNA identification of animal-derived trace evidence: tools for linking victims and suspects. Croatian Med. J.46:598-605.
  27. Sanchez, M. S. , C. J. Basten, A. M. Ferrenberg, M. A. Asmussen and J. Arnold, 2006. Exact sample sizes needed to detect dependence in 2 x 3 tables. Theoret. Pop. Biol., 69:111-120.
  28. Hall, M. C., C. J. Basten and J. H. Willis, 2006. Pleiotropic quantitative trait loci contribute to population divergence in traits associated with life history variation in Mimulus guttatus. Genetics, 172:1829-1844.