925
Views
2
CrossRef citations to date
0
Altmetric
Applications and Case Studies

Analysis of Longitudinal Multivariate Outcome Data From Couples Cohort Studies: Application to HPV Transmission Dynamics

Pages 472-485 | Received 01 Aug 2012, Published online: 06 Jul 2015

REFERENCES

  • Agresti, A. (2002), Categorical Data Analysis, New York: Wiley-Interscience.
  • Bonney, G. (1987), “Logistic Regression for Dependent Binary Observations,” Biometrics, 43, 951–973.
  • Breslow, N., and Clayton, D. (1993), “Approximate Inference in Generalized Linear Mixed Models,” Journal of the American Statistical Association, 88, 9–25.
  • Burchell, A., Coutlee, F., Tellier, P., Hanley, J., and Franco, E. (2011), “Genital Transmission of Human Papillomavirus in Recently Formed Heterosexual Couples,” Journal of Infectious Diseases, 204, 1723–1729.
  • Burchell, A., Richardson, H., Mahmud, S., Trottier, H., Tellier, P., Hanley, J. F.C., and Franco, E. (2006a), “Modeling the Sexual Transmissibility of Human Papillomavirus Infection Using Stochastic Computer Simulation and Empirical Data From a Cohort Study of Young Women in Montreal, Canada,” American Journal of Epidemiology, 163, 534–543.
  • Burchell, A.N., Tellier, P.P., Hanley, J., Coutlee, F., and Franco, E.L. (2010a), “Influence of Partner’s Infection Status on Prevalent Human Papillomavirus Among Persons With a New Sex Partner,” Sexually Transmitted Diseases, 37, 34–40.
  • ——— (2010b), “Human Papillomavirus Infections Among Couples in New Sexual Relationships,” Epidemiology, 21, 31–37.
  • Burchell, A.N., Winer, R.L., de Sanjose, S., and Franco, E.L. (2006b), “Chapter 6: Epidemiology and Transmission Dynamics of Genital HPV Infection,” Vaccine, 24, S3/52–S3/61.
  • Bureau, A., Shiboski, S., and Hughes, J. (2003), “Applications of Continuous Time Hidden Markov Models to the Study of Misclassified Disease Outcomes,” Statistics in Medicine, 22, 441–462.
  • By, K., Qaqish, B., Preisser, J., Perin, J., and Zink, R. (2014), “ORTH: R and SAS Software for Regression Models of Correlated Binary Data Based on Orthogonalized Residuals and Alternating Logistic Regressions,” Computer Methods and Programs in Biomedicine, 113, 557–568.
  • Carey, V., Zeger, S., and Diggle, P. (1993), “Modeling Multivariate Binary Data With Alternating Logistic Regressions,” Biometrika, 80, 517–526.
  • Cherpes, T.L., Melan, M.A., Kant, J.A., Cosentino, L.A., Meyn, L.A., and Hillier, S.L. (2005), “Genital Tract Shedding of Herpes Simplex Virus Type 2 in Women: Effects of Hormonal Contraception, Bacterial Vaginosis, and Vaginal Group B Streptococcus Colonization,” Clinical Infectious Diseases, 40, 1422–1428.
  • Chib, S., and Jeliazkov, I. (2006), “Inference in Semiparametric Dynamic Models for Binary Longitudinal Data,” Journal of the American Statistical Association, 101, 685–700.
  • Cogliano, V., Baan, R., Straif, K., Grosse, Y., Secretan, B., Ghissassi, F., and WHO International Agency for Research on Cancer (2005), “Carcinogenicity of Human Papillomaviruses,” The Lancet Oncology, 6, 204.
  • Crowder, M. (1986), “On Consistency and Inconsistency of Estimating Equations,” Econometric Theory, 2, 305–330.
  • Davis, M., Gray, R., Grabowski, M., Serwadda, D., Kigozi, G., Gravitt, P., Nalugoda, F., Watya, S., Wawer, M., Quinn, T., and Tobian, A. (2013), “Male Circumcision Decreases High-Risk Human Papillomavirus Viral Load in Female Partners: A Randomized Trial in Rakai, Uganda,” International Journal of Cancer, 133, 1247–1252.
  • Doorbar, J. (2013), “Latent Papillomavirus Infections and Their Regulation,” Current Opinion in Virology, 3, 416–421.
  • Firth, D. (1992), Discussion of “Multivariate Regiression Analyses for Categorical Data, ‘by’ Liang, Zeger, and Qaqish,” Journal of the Royal Statistical Society, Series B, 45, 28–29.
  • FitzGerald, E., and Knuiman, M. (1998), “Interpretation of Regressive Logistic Regression Coefficients in Analyses of Familial Data,” Biometrics, 54, 909–920.
  • Fitzmaurice, G., Davidian, M., Verbeke, G., and Molenberghs, G. (2009), Longitudinal Data Analysis, Boca Raton, FL: CRC Press.
  • Franco, E., Bosch, F., Cuzick, J., Schiller, J., Garnett, G., Meheus, A., and Wright, T. (2006), “Chapter 29: Knowledge Gaps and Priorities for Research on Prevention of HPV Infection and Cervical Cancer,” Vaccine, 24, S3/242–S3/249.
  • Geys, H., Molenberghs, G., and Ryan, L. (1999), “Pseudolikelihood Modeling of Multivariate Outcomes in Developmental Toxicology,” Journal of the American Statistical Association, 94, 734–745.
  • Giuliano, A., Lu, B., Nielson, C., Flores, R., Papenfuss, M., Lee, J., Abrahamsen, M., and Harris, R. (2008), “Age-Specific Prevalence, Incidence, and Duration of Human Papillomavirus Infections in a Cohort of 290 US Men,” Journal of Infectious Diseases, 198, 827–835.
  • Gravitt, P. (2011), “The Known Unknowns of HPV Natural History,” The Journal of Clinical Investigation, 121, 4593–4599.
  • ——— (2012), “Evidence and Impact of Human Papillomavirus Latency,” The Open Virology Journal, 6, 198–203.
  • Gray, R., Kigozi, G., Serwadda, D., Makumbi, F., Watya, S., Nalugoda, F., Kiwanuka, N., Moulton, L., Chaudhary, M., Chen, M., Sewankambo, N., Wabwire-Mangen, F., Bacon, M., Williams, C., Opendi, P., Reynolds, S., Laeyendecker, O., Quinn, T., and Wawer, M. (2007), “Male Circumcision for HIV Prevention in Men in Rakai, Uganda: A Randomised Trial,” Lancet, 369, 657–666.
  • Halfon, P., Benmoura, D., Agostini, A., Khiri, H., Penaranda, G., Martineau, A., and Blanc, B. (2010), “Evaluation of the Clinical Performance of the Abbott Real Time High-Risk HPV for Carcinogenic HPV Detection,” Journal of Clinical Virology, 48, 246–250.
  • Heagerty, P., and Lele, S. (1998), “A Composite Likelihood Approach to Binary Spatial Data,” Journal of the American Statistical Association, 93, 1099–1111.
  • Hernandez, B.Y., Wilkens, L.R., Zhu, X., Thompson, P., McDuffie, K., Shvetsov, Y.B., Kamemoto, L.E., Killeen, J., Ning, L., and Goodman, M.T. (2008), “Transmission of Human Papillomavirus in Heterosexual Couples,” Emerging Infectious Diseases, 14, 888–894.
  • Hjort, N., and Varin, C. (2007), “ML, PL, QL in Markov Chain Models,” Scandinavian Journal of Statistics, 35, 64–82.
  • Kang, M., and Lagakos, S. (2004), “Evaluating the Role of Human Papillomavirus Vaccine in Cervical Cancer Prevention,” Statistical Methods in Medical Research, 13, 139–155.
  • ——— (2007), “Statistical Methods for Panel Data From a Semi-Markov Process, With Application to HPV,” Statisticis in Medicine, 8, 252–264.
  • Kim, J., and Goldie, S. (2009), “Cost Effectiveness Analysis of Including Boys in a Human Papillomavirus Vaccination Programme in the United States,” British Medical Journal, 339, b3884.
  • Kleinbaum, D., and Klein, M. (2002), Logistic Regression A Self-Learning Text (2nd ed.), New York: Springer.
  • Kong, X., Gray, R., Archer, K., Moulton, L., and Wang, M. (2010a), “Parametric Frailty Models for Clustered Data With Arbitrary Censoring: Application to Effect of Male Circumcision on HPV Clearance,” BMC Medical Research Methodology, 10, 40.
  • Kong, X., Gray, R., Moulton, L., Wawer, M., and Wang, M. (2010b), “A Modeling Framework for the Analysis of HPV Incidence and Persistence: A Semi-Parametric Approach for Clustered Binary Longitudinal Data Analysis,” Statistics in Medicine, 29, 2880–2889.
  • Kuk, A. (2004), “Permutation Invariance of Alternating Logistic Regression for Multivariate Binary Data,” Biometrika, 91, 758–761.
  • ——— (2007), “A Hybrid Pairwise Likelihood Method,” Biometrika, 94, 939–952.
  • Kuk, A., and Nott, D. (2000), “A Pairwise Likelihood Approach to Analyzing Correlated Binary Data,” Statistics & Probability Letters, 47, 329–335.
  • Le Cessie, S., and Van Houwelingen, J. (1994), “Logistic Regression for Correlated Binary Data,” Journal of the Royal Statistical Society, Series C, 43, 95–108.
  • Liang, K., and Zeger, S. (1986), “Longitudinal Data Analysis Using Generalized Linear Models,” Biometrika, 73, 13–22.
  • ——— (1989), “A Class of Logistic Regression Models for Multivariate Binary Time Series,” Journal of the American Statistical Association, 84, 447–451.
  • Lin, S., Ghosh, A., Porras, C., Markt, S., Rodriguez, A., Schiffman, M., Wacholder, S., Kemp, T., Pinto, L., Gonzalez, P., Wentzensen, N., Esser, M., Matys, K., Meuree, A., Quint, W., van Doorn, L., Herrero, R., Hildesheim, A., Safaeian, M., and Group, C. R. V. T. (2013), “HPV16 Seropositivity and Subsequent HPV16 Infection Risk in a Naturally Infected Population: Comparison of Serological Assays,” PLoS One, 8.
  • Lindsay, B. (1988), “Composite Likelihood Methods,” Contemporary Mathematics, 80, 221–239.
  • Little, R., and Rubin, D. (2002), Statistical Analysis With Missing Data, Hoboken, NJ: Wiley.
  • McCullagh, P., and Nelder, J. (1989), Generalized Linear Models, Boca Raton, FL: Chapman and Hall/CRC.
  • Mitchell, C., Hudgens, M., King, C., Cu-Uvin, S., Lo, Y., Rompalo, A., Sobel, J., and Smith, J. (2011), “Discrete-Time Semi-Markov Modeling of Human Papillomavirus Persistence,” Statisticis in Medicine, 30, 2160–2170.
  • Molenberghs, G., and Verbeke, G. (2005), Models for Discrete Longitudinal Data, New York: Springer.
  • Morse, S., Ballard, R., Holmes, K., and Moreland, A. (2003), Atlas of Sexually Transmitted Diseases and AIDS (3rd ed.), London: Mosby.
  • Moscicki, A., Ma, Y., Farhat, S., Darragh, T., Pawlita, M., Galloway, D., and Shiboski, S. (2013), “Redetection of Cervical Human Papillomavirus Type 16 (HPV16) in Women With a History of HPV16,” The Journal of Infectious Diseases, 208, 403–412.
  • Nyitray, A., Lin, H., Fulp, W., Chang, M., Menezes, L., Lu, B., Abrahamsen, M., Papenfuss, M., Gage, C., Galindo, C., and Giuliano, A. (2014), “The Role of Monogamy and Duration of Heterosexual Relationships in Human Papillomavirus Transmission,” The Journal of Infectious Diseases, 209, 1007–1015.
  • O’Brien, L., and Fitzmaurice, G. (2004), “Analysis of Longitudinal Multiple-Source Binary Data Using Generalized Estimating Equations,” Applied Statistics, 53, 177–193.
  • Palefsky, J.M. (2010), “Human Papillomavirus-Related Disease in Men: Not Just a Women’s Issue,” The Journal of Adolescent Health, 46, S12–S19.
  • Parner, E. (2001), “A Composite Likelihood Approach to Multivariate Survival Data,” Scandinavian Journal of Statistics, 28, 295–302.
  • Rowhani-Rahbar, A., Hughes, J., and Koutsky, L. (2009), “Difficulties in Estimating the Male-to-Female Sexual Transmissibility of Human Papillomavirus Infection,” Sexually Transmitted Disease, 36, 261–263.
  • Have, T., and Morabia, A. (1999), “Mixed Effects Models With Bivariate and Univariate Association Parameters for Longitudinal Bivariate Binary Response Data,” Biometric, 55, 85–93.
  • Tota, J., Ramanakumar, A., Jiang, M., Dillner, J., Walter, S., Kaufman, J., Coutle, F., Villa, L., and Franco, E. (2013), “Epidemiologic Approaches to Evaluating the Potential for Human Papillomavirus Type Replacement Postvaccination,” American Journal of Epidemiology, 178, 625–634.
  • Trottier, H., and Franco, E.L. (2006), “The Epidemiology of Genital Human Papillomavirus Infection,” Vaccine, 24, S1–S15.
  • Varin, C. (2008), “On Composite Marginal Likelihoods,” AStA Advances in Statistical Analysis, 92, 1–28.
  • Varin, C., Reid, N., and Firth, D. (2011), “An Overview of Composite Likelihood Methods,” Statistica Sinica, 21, 5–42.
  • WHO International Agency for Research on Cancer (2007), IARC Monographs on the Evaluation of Carcinogenic Risks to Humans: Human Papillomaviruses, Lyon, France: IARC Press.
  • Widdice, L.E., Breland, D.J., Jonte, J., Farhat, S., Ma, Y., Leonard, A.C., and Moscicki, A.B. (2010), “Human Papillomavirus Concordance in Heterosexual Couples,” The Journal of Adolescent Health, 47, 151–159.
  • Wilson, L., Gravitt, P., Tobian, A., Kigozi, G., Serwadda, D., Nalugoda, F., Watya, S., Wawer, M., and Gray, R. (2014), “Male Circumcision Reduces Penile High-Risk Human Papillomavirus Viral Load in a Randomised Clinical Trial in Rakai, Uganda,” International Journal of Cancer, 134, 1889–1898.
  • Winer, R., Xi, L., Shen, Z., Stern, J., Newman, L., Feng, Q., Hughes, J., and Koutsky, L. (2014), “Viral Load and Short-Term Natural History of Type-Specific Oncogenic Human Papillomavirus Infections in a High-Risk Cohort of Midadult Women,” International Journal of Cancer, 134, 1889–1898.
  • Xi, L., Hughes, J., Castle, P., Edelstein, Z., Wang, C., Galloway, D., Koutsky, L., Kiviat, N., and Schiffman, M. (2011), “Viral Load in the Natural History of Human Papillomavirus Type 16 Infection: A Nested Case-Control Study,” The Journal of Infectious Diseases, 203, 1425–1433.
  • Zhao, Y., and Joe, H. (2005), “Composite Likelihood Estimation in Multivariate Data Analysis,” Canadian Journal of Statistics, 33, 335–356.

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.