Bayesian analysis of frequency of allelic loss data

Journal of the American Statistical Association

Volumn 102, Issue 480, 2007, Pages 1245-1253

  Huang, Hanwen ^a   Zou, Fei ^a   Wright, Fred A ^a  

^a IL   (United States)

Author keywords

Hidden Markov model; Instability selection model; Loss of heterozygosity; Markov chain Monte Carlo; Tumor suppressor genes

Indexed keywords

EID: 38349019571     PISSN: 01621459     EISSN: None     Source Type: Journal    
DOI: 10.1198/016214506000001464     Document Type: Article

References (18)

1. Baum, L. E., Petrie, T., Soules, G., and Weiss, N. (1970), "A Maximization Technique Occurring in the Statistical Analysis of Probabilistic Functions of Markov Chains," The Annals of Mathematical Statistics, 41, 164-171.
2. Best, N. C., Cowles, M. K., and Vines, S. K. (1995), CODA Manual, Version 0.30, Cambridge, U.K.: MRC Biostatistics Unit.
3. Dickey, J. M. (1971), "The Weighted Likelihood Ratio, Linear Hypothesis on Normal Location Parameters," The Annals of Mathematical Statistics, 42, 204-223.
4. Gelman, A., and Rubin, D. B. (1992), "Inference From Iterative Simulation Using Multiple Sequences," Statistical Science, 7, 457-472.
5. Geweke, J. (1992), "Evaluating the Accuracy of Sampling-Based Approaches to Calculating Posterior Moments," in Bayesian Statistics 4, eds. J. M. Bernardo, J. O. Berger, A. P. Dawid, and A. F. M. Smith, Oxford, U.K.: Clarendon Press, pp. 169-194.
6. Invarsson, S., Geirsdottir, E. K., Johannesdottir, G., Sigbjornsdottir, B. I., Eiriksdottir, G., Ranarsson, G., Agnarsson, B. A., Gudmundsson, J., Jonasson, J. G., Sigurdsson, A., Egilsson, V., and Barkardottir, R. B. (1998), "High Incidence of Loss of Heterozygosity in Breast Tumors From Carriers of the brca2 999del5 Mutation," Cancer Research, 58, 4421-4425.
7. Jeffreys, H. (1961), Theory of Probability, Oxford, U.K.: Oxford University Press.
8. Kass, R. E., and Raftery, A. E. (1995), "Bayes Factors," Journal of the American Statistical Association, 90, 773-795.
9. Kurose, K., Iida, A., Araki, T., Sakamoto, G., Kasumi, F., Nakamura, Y., and Emi, M. (1998), "Frequent Allelic Loss at 7p14-15 Associated With Aggressive Histologic Types of Breast Cancer," Japanese Journal of Cancer Research, 89, 533-538.
10. Lander, E., and Kruglyak, L. (1995), "Genetic Dissection of Complex Traits: Guidelines for Interpreting and Reporting Linkage Results," Nature Genetics, 11, 241-247.
11. Levinson, S. E., Rabiner, L. R., and Sondhi, M. M. (1983), "An Introduction to the Application of the Theory of Probabilistic Functions of a Markov Process to Automatic Speech Recognition," Bell Systems Technical Journal, 62, 1035-1074.
12. Lin, D. Y., and Zou, F. (2004), "Resampling Approach to Assessing Genomewide Statistical Significance in Linkage Studies," Genetic Epidemiology, 27, 202-214.
13. Miller, B. J., Wang, D. L., Krahe, R., and Wright, F. A. (2003), "Pooled Analysis of Loss of Heterozygosity in Breast Cancer: A Genome Scan Provides Comparative Evidence for Multiple Tumor Suppressors and Identifies Novel Candidate Regions," American Journal of Human Genetics, 73, 748-767.
14. Newton, M. A., Gould, M. N., Reznikoff, C. A., and Haag, J. D. (1998), "On the Statistical Analysis of Allelic-Loss Data," Statistics in Medicine, 17, 1425-1445.
15. Newton, M. A., and Lee, Y. (2000), "Inferring the Location and Effect of Tumor Suppressor Genes by Instability-Selection Modeling of Allelic-Loss Data," Biometrics, 56, 1088-1097.
16. Ohgaki, K., Iida, A., Kasumi, F., Sakamoto, G., Akimoto, M., Nakamura, Y., and Emi, M. (1998), "Mapping of a New Target Region of Allelic Loss to a 6-cm Interval at 21q21 in Primary Breast Cancers," Genes, Chromosomes, and Cancer, 23, 244-247.
17. Sigbjornsdottir, B. I., Ragnarsson, G., Agnarsson, B. A., Huiping, C., Barkardottir, R. B., Egilsson, V., and Ingvarsson, S. (2000), "Chromosome 8p Alterations in Sporadic and brca2 999del5-Linked Breast Cancer," Journal of Medical Genetics, 37, 342-347.
18. Sterrett, A., and Wright, F. A. (2007), "Inferring the Location of Tumor-Suppressor Genes by Modeling Frequency of Allelic Loss," Biometrics, in press.