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Applications and Case Studies

Bayesian Semiparametric Estimation of Cancer-Specific Age-at-Onset Penetrance With Application to Li-Fraumeni Syndrome

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Pages 541-552 | Received 01 Sep 2015, Published online: 15 Aug 2018

References

  • Abel, L., Bonney, G. E., and Rao, D. (1990), “A Time-Dependent Logistic Hazard Function for Modeling Variable Age of Onset in Analysis of Familial Diseases,” Genetic Epidemiology, 7, 391–407.
  • Berry, D. A., Iversen, E. S., Gudbjartsson, D. F., Hiller, E. H., Garber, J. E., Peshkin, B. N., Lerman, C., Watson, P., Lynch, H. T., and Hilsenbeck, S. G. (2002), “BRCAPRO Validation, Sensitivity of Genetic Testing of BRCA1/BRCA2, and Prevalence of Other Breast Cancer Susceptibility Genes,” Journal of Clinical Oncology, 20, 2701–2712.
  • Birch, J. M., Alston, R. D., McNally, R., Evans, D., Kelsey, A. M., Harris, M., Eden, O. B., and Varley, J. M. (2001), “Relative Frequency and Morphology of Cancers in Carriers of Germline TP53 Mutations,” Oncogene, 20, 4621–4628.
  • Carnicer, J. M., and Pe na, J. M. (1993), “Shape Preserving Representations and Optimality of the Bernstein Basis,” Advances in Computational Mathematics, 1, 173–196.
  • Chang, I.-S., Hsiung, C. A., Wu, Y.-J., and Yang, C.-C. (2005), “Bayesian Survival Analysis Using Bernstein Polynomials,” Scandinavian Journal of Statistics, 32, 447–466.
  • Chatterjee, N., Hartge, P., and Wacholder, S. (2003), “Adjustment for Competing Risk in Kin-Cohort Estimation,” Genetic Epidemiology, 25, 303–313.
  • Curtis, M. S., and Ghosh, S. K. (2011), “A Variable Selection Approach to Monotonic Regression With Bernstein Polynomials,” Journal of Applied Statistics, 38, 961–976.
  • Duchateau, L., and Janssen, P. (2007), The Frailty Model, New York: Springer.
  • Elston, R. C., and Stewart, J. (1971), “A General Model for the Genetic Analysis of Pedigree Data,” Human Heredity, 21, 523–542.
  • Ewens, W., and Shute, N. C. (1986), “A Resolution of the Ascertainment Sampling Problem I. Theory,” Theoretical Population Biology, 30, 388–412.
  • Fernando, R., Stricker, C., and Elston, R. (1993), “An Efficient Algorithm to Compute the Posterior Genotypic Distribution for Every Member of a Pedigree Without Loops,” Theoretical and Applied Genetics, 87, 89–93.
  • Fine, J. P., and Gray, R. J. (1999), “A Proportional Hazards Model for the Subdistribution of a Competing Risk,” Journal of the American Statistical Association, 94, 496–509.
  • Gauderman, W., and Faucett, C. (1997), “Detection of Gene-Environment Interactions in Joint Segregation and Linkage Analysis,” American Journal of Human Genetics, 61, 1189–1199.
  • Gelfand, A. E., and Mallick, B. K. (1995), “Bayesian Analysis of Proportional Hazards Models Built From Monotone Functions,” Biometrics, 51, 843–852.
  • Gorfine, M., and Hsu, L. (2011), “Frailty-Based Competing Risks Model for Multivariate Survival Data,” Biometrics, 67, 415–426.
  • Gorfine, M., Hsu, L., Zucker, D. M., and Parmigiani, G. (2014), “Calibrated Predictions for Multivariate Competing Risks Models,” Lifetime Data Analysis, 20, 234–251.
  • Hashemian, A. H., Hajizadeh, E., Kazemnezad, A., Meshkani, M. R., and Mehdipour, P. (2009), “Kin-Cohort Estimate of Penetrance with Piecewise Weibull Model,” World Applied Sciences Journal, 6, 77–82.
  • Hjort, N. L. (1990), “Goodness of Fit Tests in Models for Life History Data Based on Cumulative Hazard Rates,” The Annals of Statistics, 18, 1221–1258.
  • Hollander, M., and Pena, E. A. (1992), “A Chi-Squared Goodness-of-Fit Test for Randomly Censored Data,” Journal of the American Statistical Association, 87, 458–463.
  • Hwang, S.-J., Lozano, G., Amos, C. I., and Strong, L. C. (2003), “Germline p53 Mutations in a Cohort with Childhood Sarcoma: Sex Differences in Cancer Risk,” The American Journal of Human Genetics, 72, 975–983.
  • Ibrahim, J. G., Chen, M.-H., and Sinha, D. (2005), Bayesian Survival Analysis, New York: Wiley Online Library.
  • Iversen, E. S., and Chen, S. (2005), “Population-Calibrated Gene Characterization: Estimating Age at Onset Distributions Associated With Cancer Genes,” Journal of the American Statistical Association, 100, 399–409.
  • Kraft, P., and Thomas, D. (2000), “Bias and Efficiency in Family-Based Gene-Characterization Studies: Conditional, Prospective, Retrospective, and Joint Likelihoods,” American Journal of Human Genetics, 66, 1119–1131.
  • Lalloo, F., Varley, J., Ellis, D., Moran, A., O’Dair, L., Pharoah, P., and Evans, D. G. R. (2003), “Prediction of Pathogenic Mutations in Patients With Early-Onset Breast Cancer by Family History,” The Lancet, 361, 1101–1102.
  • Lange, K., and Elston, R. (1975), “Extensions to Pedigree Analysis,” Human Heredity, 25, 95–105.
  • Li, G., and Doss, H. (1993), “Generalized Pearson-Fisher Chi-Square Goodness-of-Fit Tests, with Applications to Models With Life History Data,” The Annals of Statistics, 21, 772–797.
  • Lorentz, G. G. (1953), Bernstein Polynomials, Providence, RI: American Mathematical Society.
  • Lustbader, E., Williams, W., Bondy, M., Strom, S., and Strong, L. (1992), “Segregation Analysis of Cancer in Families of Childhood Soft-Tissue-Sarcoma Patients,” American Journal of Human Genetics, 51, 344–356.
  • Malkin, D., Li, F. P., Strong, L. C., Joseph, F. Fraumeni, J., Nelson, C. E., Kim, D. H., Kassel, J., Gryka, M. A., Bischoff, F. Z., Tainsky, M. A., and Friend, S. H. (1990), “Germline p53 Mutations in a Familial Syndrome of Breast Cancer, Sarcomas, and Other Neoplasms,” Science, 250, 1233–1238.
  • Maller, R. A., and Zhou, X. (2002), “Analysis of Parametric Models for Competing Risks,” Statistica Sinica, 12, 725–750.
  • Nichols, K. E., Malkin, D., Garber, J. E., Fraumeni, J. F., and Li, F. P. (2001), “Germ-Line p53 Mutations Predispose to a Wide Spectrum of Early-Onset Cancers,” Cancer Epidemiology Biomarkers & Prevention, 10, 83–87.
  • Pfeiffer, R. M., Gail, M. H., and Pee, D. (2001), “Inference for Covariates That Accounts for Ascertainment and Random Genetic Effects in Family Studies,” Biometrika, 88, 933–948.
  • Prentice, R. L., Kalbfleisch, J. D., Peterson Jr, A. V., Flournoy, N., Farewell, V., and Breslow, N. (1978), “The Analysis of Failure Times in the Presence of Competing Risks,” Biometrics, 34, 541–554.
  • Putter, H., Fiocco, M., and Geskus, R. (2007), “Tutorial in Biostatistics: Competing Risks and Multi-State Models,” Statistics in Medicine, 26, 2389–2430.
  • Schoenfeld, D. (1982), “Partial Residuals for the Proportional Hazards Regression Model,” Biometrika, 69, 239–241.
  • Srivastava, S., Zou, Z., Pirollo, K., Blattner, W., and Chang, E. H. (1990), “Germ-Line Transmission of a Mutated p53 Gene in a Cancer-Prone Family With Li–Fraumeni Syndrome,” Nature, 348, 747–749.
  • Strong, L. C., Williams, W. R., and Tainsky, M. A. (1992), “The Li–Fraumeni Syndrome: From Clinical Epidemiology to Molecular Genetics,” American Journal of Epidemiology, 135, 190–199.
  • Therneau, T. M., Grambsch, P. M., and Fleming, T. R. (1990), “Martingale-Based Residuals for Survival Models,” Biometrika, 77, 147–160.
  • Tsiatis, A. (1975), “A Nonidentifiability Aspect of the Problem of Competing Risks,” Proceedings of the National Academy of Sciences, 72, 20–22.
  • Wang, Y., Clark, L. N., Marder, K., and Rabinowitz, D. (2007), “Nonparametric Estimation of Age-at-Onset Distributions From Censored Kin-Cohort Data,” Biometrika, 94, 403–114.
  • Wu, C.-C., Strong, L. C., and Shete, S. (2010), “Effects of Measured Susceptibility Genes on Cancer Risk in Family Studies,” Human Genetics, 127, 349–357.

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