Bayesian multiple quantitative trait loci mapping for complex traits using markers of the entire genome

Genetics

Volumn 176, Issue 4, 2007, Pages 2529-2540

  Huang, Hanwen ^a   Eversley, Chevonne D ^b   Threadgill, David W ^b,c   Zou, Fei ^a,c  

^a University of North Carolina at Chapel Hill   (United States)

^b UNIVERSITY OF NORTH CAROLINA SCHOOL OF MEDICINE   (United States)

^c UNIVERSITY OF NORTH CAROLINA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BAYES THEOREM; COLORECTAL CANCER; GENE MAPPING; GENOME; METHODOLOGY; PRIORITY JOURNAL; QUANTITATIVE TRAIT LOCUS; SIMULATION;

ANIMALS; BAYES THEOREM; CHROMOSOME MAPPING; COLORECTAL NEOPLASMS; GENETIC MARKERS; GENOMICS; MICE; MODELS, GENETIC; MODELS, STATISTICAL; QUANTITATIVE TRAIT LOCI;

EID: 34548459813     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.106.064980     Document Type: Article

References (29)

1. BEST, N. C., M. K. COWLES and S. K. VINES, 1995 CODA Manual Version 0.30. MRC Biostatistics Unit, Cambridge, UK.
2. CARLBORG, O., and L. ANDERSSON, 2002 Use of randomization testing to detect multiple epistatic QTL. Genet. Res. 79: 175-184.
3. COFFMAN, C. J., R. W. DOERGE, K. L. SIMONSEN, K. M. NICHOLS, C. K. DUARTE et al., 2005 Model selection in binary trait locus mapping. Genetics 170: 1281-1297.
4. FALCONER, D. S., 1965 The inheritance of liability to certain diseases, estimated from the incidence among relatives. Ann. Hum. Genet. 29: 51-71.
5. FALCONER, D. S., and T. F. C. MACKAY, 1996 Introduction to Quantitative Genetics, Ed. 4. Addison-Wesley, Boston.
6. GEORGE, E. I., and R. E. MCCULLOCH, 1993 Variable selection via Gibbs sampling. J. Am. Stat. Assoc. 88: 881-889.
7. GILKS, W. R., and P. WILD, 1992 Adaptive rejection sampling for Gibbs sampling. Appl. Stat. 41: 337-348.
8. GREEN, P. J., 1995 Reversible jump Markov chain Monte Carlo computation and Bayesian model determination. Biometrika 82: 711-732.
9. HACKETT, C. A., and J. I. WELLER, 1995 Genetic mapping of quantitative trait loci for traits with ordinal distributions. Biometrics 51: 1252-1263.
10. HOESCHELE, I., 2001 Mapping quantitative trait loci in outbred pedigrees, pp. 599-644 in Handbook of Statistical Genetics, edited by D. J. BALDING, M. BISHOP and C. CANNINGS. Wiley, New York.
11. KAO, C. H., Z. B. ZENG and R. D. TEASDALE, 1999 Multiple interval mapping for quantitative trait loci. Genetics 152: 1203-1216.
12. NARITA, A., and Y. SASAKI, 2004 Detection of multiple QTL with epistatic effects under a mixed inheritance model in an outbred population. Genet. Sel. Evol. 36: 415-433.
13. RUIVENKAMP, C. A., T. CSIKOS, A. M. KLOUS, T. V. WEZEL and P. DEMANT, 2003 Five new mouse susceptibility to colon cancer loci, Scc11-Scc15. Oncogene 22: 7258-7260.
14. SATAGOPAN, J. M., B. S. YANDELL, M. A. NEWTON and T. C. OSBORN, 1996 A Bayesian approach to detect quantitative trait loci using Markov chain Monte Carlo. Genetics 144: 805-816.
15. SILLANPAA, M. J., and E. ARJAS, 1998 Bayesian mapping of multiple quantitative trait loci from incomplete inbred line cross data. Genetics 148: 1373-1388.
16. STEPHENS, D. A., and R. D. FISCH, 1998 Bayesian analysis of quantitative trait locus data using reversible jump Markov chain Monte Carlo. Biometrics 54: 1334-1347.
17. VEN, R. V., 2004 Reversible-jump Markov chain Monte Carlo for quantitative trait loci mapping. Genetics 167: 1033-1035.
18. 2 populations. Genet. Res. 68: 55-63.
19. WANG, H., Y.-M. ZHANG, X. LI, G. L. MASINDE, S. MOHAN et al., 2005 Bayesian shrinkage estimation of quantitative trait loci parameters. Genetics 170: 465-480.
20. WRIGHT, S., 1934a An analysis of variability in number of digits in an inbred strain of guinea pigs. Genetics 19: 506-536.
21. WRIGHT, S., 1934b The results of crosses between inbred strains of guinea pigs, differing in number of digits. Genetics 19: 537-551.
22. XU, S., 2003 Estimating polygenic effects using markers of the entire genome. Genetics 163: 789-810.
23. XU, S., and W. R. ATCHLEY, 1996 Mapping quantitative trait loci for complex binary diseases using line crosses. Genetics 143: 1417-1424.
24. YI, N., 2004 A unified Markov chain Monte Carlo framework for mapping multiple quantitative trait loci. Genetics 167: 967-975.
25. YI, N., and S. XU, 2000 Bayesian mapping of quantitative trait loci for complex binary traits. Genetics 155: 1391-1403.
26. YI, N., and S. XU, 2001 Bayesian mapping of quantitative trait loci under complicated mating designs. Genetics 157: 1759-1771.
27. YI, N., and S. XU, 2002 Mapping quantitative trait loci with epistatic effects. Genet. Res. 79: 185-198.
28. YI, N., B. S. YANDELL, G. A. CHURCHILL, D. B. ALLISON, E. J. EISEN et al., 2005 Bayesian model selection for genome-wide epistatic quantitative trait loci analysis. Genetics 170: 1333-1344.
29. ZENG, Z. B., 1993 Theoretical basis for separation of multiple linked gene effects in mapping quantitative trait loci. Proc. Natl. Acad. Sci. USA 90: 10972-10976.