Christopher J. Basten
Syngenta Biotechnology, Inc.
PO Box 12257
3054 E Cornwallis Road
Research Triangle Park NC 27709-2257
Email: christopher.basten at syngenta.com
Personal Email: cbasten at nc.rr.com
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 statgen.ncsu.edu 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
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
- Moody, M. E. and C J. Basten, 1990. The evolution of latent genes in
subdivided populations. Genetics 124:187-197.
- Basten, C. J. and B. S. Weir, 1990. Effect of gene conversion on variances
digenic identity measures. Theoret. Pop. Biol. 38:125-148.
- Weir, B. S. and C. J. Basten, 1990. Sampling strategies for distances
DNA sequences. Biometrics 46:551-582.
- 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.
- Basten, C. J. and T. Ohta, 1992. Simulation study of a multigene family,
special reference to the evolution of compensatory advantageous mutations.
- 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.
- 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.
- Basten, C.J. and M. A. Asmussen, 1993. A theoretical framework for
estimating mitotic stability in conidial fungi.
- 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.
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.
- Asmussen, M. A. and C. J. Basten, 1994. Sampling theory for cytonuclear
disequilibria. Genetics 138:1351-1363.
- Asmussen, M. A. and C. J. Basten, 1996. Constraints and normalized measures
for cytonuclear disequilibria. Heredity, 76:207-214.
- 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.
- Jenkins, T. M., C. J. Basten and W. A. Anderson, 1996.
Mitochondrial gene divergence of Colombian Drosophila
pseudoobscura. Mol. Biol. Evol., 13:1266-1275.
- Basten, C. J. and M. A. Asmussen, 1997. The exact test for cytonuclear
disequilibria. Genetics 146:1165-1171.
- 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.
- 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.
- Jenkins, T.M., C. J. Basten, S. Kresovich and B. T. Forschler,
Mitochondrial gene sequence questions Reticulitermes sp. social
structure (Isoptera: Rhinotermitidae).
- Zeng, Z.-B., C.-H. Kao and C. J. Basten, 1999.
Estimating the genetic architecture of quantitative traits.
Genetical Research, 74:279-290.
- Buckleton, J. S., J. M. Curran and C. J. Basten,
Evaluating the statistical significance
of single band profiles in VNTR analyses.
Science and Justice,
- Jenkins, T.M., M. I. Haverty, C. J. Basten and B. T. Forschler,
Correlation of mitochondrial haplotypes with cuticular hydrocarbon phenotypes
of sympatric Reticulitermes species from the southeastern United States.
J. Chem. Ecol.,
- Basten, C.J., 2000. Review of Genetics and the Analysis of
Quantitative Traits by M. Lynch and B. Walsh. Theoret. Pop. Biol.
- 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.
- Stuurman, J., M. E. Hoballah, L. Broger, J. Moore,
C. J. Basten and C. Kuhlemeier, 2004.
Dissection of pollination syndromes in Petunia.
- Halvorsen, J. and C. J. Basten, 2005.
A PCR multiplex and database for forensic DNA identification of dogs.
J. Forens. Sci., 50:352-363.
- 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.
- 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.
- 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.,
- 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,