Retrospective analysis of haplotype-based case-control studies under a flexible model for gene-environment association

Biostatistics

Volumn 9, Issue 1, 2008, Pages 81-99

  Chen, Yi Hau ^a   Chatterjee, Nilanjan ^b   Carroll, Raymond J ^c  

^a INSTITUTE OF STATISTICAL SCIENCE   (Taiwan)

^b NATIONAL CANCER INSTITUTE   (United States)

^c TEXAS A AND M UNIVERSITY   (United States)

Author keywords

Case control studies; EM algorithm; Gene environment interactions; Haplotype; Semiparametric methods

Indexed keywords

ARYLAMINE ACETYLTRANSFERASE; NAT2 PROTEIN, HUMAN; UNCLASSIFIED DRUG;

ADENOMA; ARTICLE; BIOLOGICAL MODEL; CASE CONTROL STUDY; COLORECTAL TUMOR; COMPUTER SIMULATION; ENVIRONMENTAL EXPOSURE; GENETICS; HAPLOTYPE; HUMAN; RETROSPECTIVE STUDY; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICAL MODEL;

ADENOMA; ARYLAMINE N-ACETYLTRANSFERASE; CASE-CONTROL STUDIES; COLORECTAL NEOPLASMS; COMPUTER SIMULATION; ENVIRONMENTAL EXPOSURE; HAPLOTYPES; HUMANS; LOGISTIC MODELS; MODELS, GENETIC; POLYMORPHISM, SINGLE NUCLEOTIDE; RETROSPECTIVE STUDIES;

EID: 37249046526     PISSN: 14654644     EISSN: 14684357     Source Type: Journal    
DOI: 10.1093/biostatistics/kxm011     Document Type: Article

References (16)

1. ANDERSEN, J.B. (1970). Asymptotic properties of conditional maximum likelihood estimators. Journal of the Royal Statistical Society, Series B 32, 283-301.
2. CHATTERJEE, N. AND CARROLL, R. J. (2005). Semiparametric maximum likelihood estimation in case-control studies of gene-environmental interactions. Biometrika 92, 399-418.
3. CHATTERJEE, N., CHEN, J., SPINKA, C. AND CARROLL, R. J. (2006). Comment on the paper likelihood based inference on haplotype effects in genetic association studies by D. J. Lin and D. Zeng. Journal of the American Statistical Association 101, 108-110.
4. EPSTEIN, M. AND SATTEN, G. (2003). Inference of haplotype effects in case-control studies using unphased genotype data. American Journal of Human Genetics 73, 1316-1329.
5. GOHAGAN, J. K., PROROK, P. C., HAYES, R. B., KRAMER, B. S. (2000). The Prostate, Lung, Colorectal and Ovarian (PLCO) Cancer Screening Trial of the National Cancer Institute: History, organization, and status. Controlled Clinical Trials 21, 251S-272S.
6. LAKE, S. L., LYON, H., TANTISIRA, K., SILVERMAN, E. K., WEISS, S. T., LAIRD, N. M. AND SCHAID, D. J. (2003). Estimation and tests of haplotype-environment interaction when linkage phase is ambiguous. Human Heredity 55, 56-65.
7. LI, S. S., KHALID, N., CARLSON, C. AND ZHAO, L. P. (2003). Estimating haplotype frequencies and standard errors for multiple single nucleotide polymorphisms. Biostatistics 4, 513-522.
8. LIN, D. Y. AND ZENG, D. (2006). Likelihood-based inference on haplotype effects in genetic association studies (with discussion). Journal of the American Statistical Association 101, 89-118.
9. MOSLEHI, R., CHATTERJEE, N., CHURCH, T. R., CHEN, J., YEAGER, M., WEISSFIELD, J., HEIN, D. W. AND HAYES, R. B. (2006). Cigarette smoking, n-acetyltransferase genes and the risk of advanced colorectal adenoma. Pharmacogenomics 7, 819-829.
10. PRENTICE, R. L. AND PYKE, R. (1979). Logistic disease incidence models and case-control studies. Biometrika 66, 403-411.
11. ROEDER, K., CARROLL, R. J. AND LINDSAY, B. G. (1996). A nonparametric mixture approach to case-control studies with errors in covariables. Journal of the American Statistical Association 91, 722-732.
12. SATTEN, G. A. AND EPSTEIN, M. P. (2004). Comparison of prospective and retrospective methods for haplotype inference in case-control studies. Genetic Epidemiology 27, 192-201.
13. SCHAID, D. J. (2004). Evaluating associations of haplotypes with traits. Genetic Epidemiology 27, 348-364.
14. SPINKA, C., CARROLL, R. J. AND CHATTERJEE, N. (2005). Analysis of case-control studies of genetic and environmental factors with missing genetic information and haplotype-phase ambiguity. Genetic Epidemiology 29, 108-127.
15. WALLENSTEIN, S., HODGE, S. E. AND WESTON, A. (1998). Logistic regression model for analyzing extended haplotype data. Genetic Epidemiology 15, 173-181.
16. ZHAO, L. P., LI, S. S. AND KHALID, N. A (2003). Method for the assessment of disease associations with single-nucleotide polymorphism haplotypes and environmental variables in case-control studies. American Journal of Human Genetics, 72, 1231-1250.