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  • Selected Papers in 2009
    • Testing in semiparametric models with interaction, with applications to gene-environment interactions. Journal of the Royal Statistical Society, Series B, to appear (with A. Maity, N. Chatterjee and E. Mammen).
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  • Selected Papers in 2008
    • Nonparametric estimation and testing of fixed effects panel data models. Journal of Econometrics, 144, 257-276 (with D. Henderson and Q. Li).
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    • Nonparametric variance estimation in the analysis of microarray data: a measurement error approach. Biometrika, to appear (with Yuedong Wang).
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    • Combining assays for estimating prevalence of human herpesvirus 8 infection using multivariate mixture models. Biostatistics, to appear (with R. Pfeiffer).
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    • Semiparametric longitudinal-spatial binary regression, with application to colon carcinogenesis. Biometrics, to appear (with T. Apanasovich, D. Ruppert, J. Lupton, N. Popovic, N. Turner and R. Chapkin).
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    • Haplotype-based regression analysis and inference of case-control studies with unphased genotypes and measurement errors in environmental exposures. Biometrics, to appear (with I. Lobach, N. Chatterjee, C. Spinka and M. H. Gail).
      PDF File
      Web Appendix
    • Binary regression in truncated samples, with application to comparing dietary instruments in a large prospective study. Biometrics, 64, 289-298 (with Doug Midthune, Victor Kipnis and Laurence Freedman).
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    • Joint modeling of paired sparse functional data using principal components. Biometrika, to appear (with Lan Zhou and Jianhua Huang)
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    • Bayesian hierarchical spatially correlated functional data analysis with application to colon carcinogenesis. Biometrics, 64, 64-73 (with Veerabhadran Baladandayuthapani, Bani Mallick, Nancy Turner, MeeYoung Hong, Robert Chapkin and Joanne Lupton).
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  • Selected Papers in 2007
    • Nonparametric regression function estimation from data contaminated by a mixture of classical and Berkson measurement errors, Journal of the Royal Statistical Society, Series B, 69, 859-878 (with Aurore Delaigle and Peter Hall).
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    • Spatially adaptive Bayesian P-splines with heteroscedastic errors. Journal of Computational and Graphical Statistics, 16, 265-288 (with Ciprian Crainiceanu, David Ruppert, Adarsh Joshi and Billy Goodwin).
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    • Retrospective analysis of haplotype-based case-control studies under a flexible model for gene-environment association, Biostatistics, to appear (with Nilanjan Chatterjee and Yi-hau Chen).
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    • Estimation of population-level summaries in general semiparametric repeated measures regression models. IMS Monograph Series Festschrift for P. K. Sen, to appear (with Arnab Maity and Tatiyana Apanasovich).
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    • Shared uncertainty in measurement error problems, With application to Nevada Test Site fallout data. Biometrics, to appear (with Yehua Li, Owen Hoffman and Annamaria Guolo).
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    • An asymptotic theory for model selection inference in general semiparametric problems. Biometrika, published online May 15, 2007 (with Gerda Claeskens).
      Please note that the second formula on page 10 has a typesetter error: the left square bracket should be after the convergence symbol, not well before it.
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    • Nonparametric estimation of correlation functions in longitudinal and spatial data, with application to colon carcinogenesis experiments. Annals of Statistics, 35, (with Yehua Li, Naisyin Wang, Nancy Turner, Mee Young Hong, Robb Chapkin and Joanne Lupton).
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    • The Hanford Thyroid Disease Study: an alternative view of the findings. Health Physics, 92, 99-111 (with F. Owen Hoffman, J. Ruttenber and Sander Greenland).
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    • Partially linear models with missing response variables and error-prone covariates.Biometrika, 94, 185-198 (with Hua Liang and Suojin Wang).
      PDF File of published paper
      PDF File with proofs and technical arguments
    • Stochastic approximation in Monte-Carlo Computation. JASA, 102, 305-320 (with Faming Liang and Chuanhai Liu).
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    • Efficient estimation of population-level summaries in general semiparametric regression models. JASA, 102, 123-139 (with Arnab Maity and Yanyuan Ma).
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    • Backfitting versus profiling in general criterion functions. Statistica Sinica, 17, 797-816 (with Ingrid Van Keilegom).
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  • Selected Papers in 2006
    • Bayesian error analysis model (BEAM) for reconstructing transcriptional regulatory networks. PNAS, 103, 7988-7993 (With Ning Sun and Hongyu Zhao).
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    • Radiation exposure and thyroid cancer: Letter to the editor. JAMA (with Owen Hoffman, James Ruttenber and Sander Greenland), 296, 513.
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    • Semiparametric estimation in general repeated measures problems. Journal of the Royal Statistical Society, Series B, 68, 69-88 (with Xihong Lin).
      PDF File of published paper
      PDF File with proofs and technical arguments (of major interest in their own right.)
    • Wavelet-based functional mixed models. Journal of the Royal Statistical Society, Series B, 68, 179-199 (with Jeffrey Morris).
      PDF File Web site with executable code and examples of spiky data
    • Seemingly unrelated measurement error models, with application to nutritional epidemiology. Biometrics, 62, 75-84 (with Doug Midthune, Larry Freedman and Victor Kipnis).
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    • Locally efficient estimators for semiparametric models with measurement error. JASA, 101, 1465-1474 (with Yanyuan Ma).
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    • Thyroid disease associated with exposure to the Nevada Test Site radiation: a reevaluation based on corrected dosimetry and examination data. Epidemiology, 17, 604-614 (with J. Lyon, F. O. Hoffman, and others)
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    • Discussion of Conditional Growth Charts by Ying Wei and Xuming He. Annals of Statistics (with David Ruppert)
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  • Selected Papers in 2005
    • Semiparametric maximum likelihood estimation exploiting gene-environment independence in case-control studies. Biometrika, 92, 399-418 (with Nilanjan Chatterjee).
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    • Analysis of case-control studies of genetic and environmental factors with missing genetic information and haplotype-phase ambiguity. Genetric Epidemiology, 29, 108-127 (with Christine Spinka and Nilanjan Chatterjee).
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    • Efficient semiparametric marginal estimation for longitudinal/clustered data JASA, (with Naisyin Wang and Xihong Lin), 100, 147-157.
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    • Estimating misclassification error with small samples via bootstrap cross-validation, Bioinformatics, 21, 1979-1986 (with Wenjiang Fu and Suojin Wang).
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    • Exploiting gene-environment independence in family-based case-control studies: increased power for detecting associations, interactions and joint effects. Genetic Epidemiology, 28, 138-156 (with Nilanjan Chatterjee and Zeynep Kalaylioglu)
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    • Spatially adaptive Bayesian penalized regression splines (P-splines). Journal of Computational and Graphical Statistics, 14, 378-394 (with Veera Baladandayuthapani and Bani Mallick).
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    • How many samples are needed to build a classifier: a general sequential approach. Bioinformatics, 21, 63-70 (with Wenjiang Fu, Ed Dougherty and Bani Mallick).
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    • Semiparametric Bayesian analysis of matched case-control studies with missing exposure. JASA, 100, 591-601 (with Samiran Sinha, Bhramar Mukherjee, Malay Ghosh and Bani K. Mallick). PDF File
    • On Estimation in binary autologistic spatial models. Journal of Statistical Computation and Simulation, to appear (with Mike Sherman and Tanya Apanasovich).
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  • Selected Papers in 2004
    • Profile-kernel versus backfitting in partially linear models for longitudinal/clustered data. Biometrika, 91, 252-261 (with Zhonghui Hu and Naisyin Wang).
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    • Simple fitting of subject-specific curves for longitudinal data. Statistics in Medicine (with Maria Durban, Jarek Harelezk and Matt Wand).
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    • Noise factor analysis for cDNA microarrays. Journal of Biomedical Optics, 9, 663-678 (with Yoganand Balagurunathana, Naisyin Wang, Edward R. Dougherty, Danh V. Nguyen, Yidong Chen, Michael L. Bittner and Jeffrey. M. Trent).
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    • Estimation in Partially Linear Models with Missing Covariates. JASA, 99, 357-367 (with Hua Liang, Suojin Wang and Jamie Robins).
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    • Instrumental variables and nonparametric regression. JASA, 99, 736-750 (with David Ruppert, Tor Tosteson, Ciprian Crainiceanu and Margaret Karagas).
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    • Equivalent kernels of smoothing splines in nonparametric regression for clustered/longitudinal data. Biometrika, 91, 177-193 (with Xihong Lin, Naisyin Wang and Alan Welsh)
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    • Is crossvalidation better than resubstitution for ranking genes? Bioinformatics.
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    • Histospline method in nonparametric regression models with applications. Statistica Sinica, 14, 633-658 (with Peter Hall, Xihong Lin and Tanya Apanasovich).
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    • A new method for dealing with measurement error in explanatory variables of regression models. Biometrics, 60, 172-181 (with Larry Freedman, Victor Kipnis, Vitali Fainberg and Douglas Midthune).
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    • Missing value estimation for cancer microarray gene expression data. Journal of Data Science, 2, 347-370 (with Danh Nguyen and Naisyin Wang).
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    • Low--Order Approximations in Deconvolution and Regression With Errors in Variables. JRSS Series B (with Peter Hall), 66, 31-46.
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      Regression simulation results not included in the paper: PDF File - PostScript
  • Selected Papers in 2003
    • A comparison of a food frequency questionnaire with a 24-hour recall for use in an epidemiological cohort study: results from the biomarker-based OPEN study. International Journal of Epidemiology.
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    • The structure of dietary measurement error: results from the OPEN biomarker study. American Journal of Epidemiology.
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    • Variance are Not Always Nuisance Parameters: The 2002 R. A. Fisher Lecture. Biometrics
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    • Semiparametric regression splines in matched case-control studies Biometrics (With Inyoung Kim and Noah Cohen).
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    • Testing for spatial correlation in nonstationary binary data with application to Aberrant Crypt Foci in colon carcinogenesis. Biometrics, (with T. Apanasovich, S. Sheather, N. Popovic, N. Turner, R. Chapkin and J. Lupton).
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    • Color images of aberrant crypt foci in colon carcinogenesis.
      PDF File - PostScript
    • Wavelet-based nonparametric modeling of hierarchical functions in colon carcinogenesis JASA, Editor Invited Paper for 2003 (with Jeffrey Morris, Philip Brown and Marina Vannucci).
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    • More efficient kernel estimation in nonparametric regression with correlated errors. (With Zhijie Xiao, Oliver Linton and Enno Mammen), JASA.
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    • Accounting for correlation in marginal longitudinal nonparametric regression. Seattle Biostatistics Symposium (with Oliver Linton, Enno Mammen and Xihong Lin), to appear.
      PDF File - PostScript
    • Semiparametric inference in matched case--control studies with missing covariate data. Biometrika (with Paul Rathouz and Glen Satten).
      PDF File - PostScript
    • The relationship between virologic and immunologic responses in AIDS clinical research using mixed--effects varying--coefficient semiparametric models with measurement error. Biostatistics (with Hua Liang and Hulin Wu).
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  • Selected Papers in 2002
    • DNA microarray experiments: biological and technological aspects Biometrics (with Danh Nguyen, A. Bulak Arpat and Naisyin Wang).
      PDF File
      Tutorial Figures: PDF File - Color Figures: PDF File
    • Marginal Longitudinal Nonparametric Regression: Locality and Efficiency of Spline and Kernel Methods. JASA (with Alan Welsh and Xihong Lin).
      PDF File - PostScript
    • Morris, J. S., Wang, N., Lupton, J. R., Chapkin, R. S., Turner, N. D. Hong, M. Y. and Carroll, R. J. (2002). A Bayesian analysis of colonic crypt structure and coordinated response incorporating missing crypts. Biostatistics.
      PDF File - PostScript
    • Semiparametric regression modeling with mixtures of Berkson and classical error, with application to fallout from the Nevada test site. Biometrics (with Bani Mallick, F. Owen Hoffman).
      PDF File
    • Bayesian smoothing and regression splines for measurement error problems. JASA (with Scott Berry and David Ruppert).
      PDF File - PostScript
    • Semiparametric regression for clustered data using generalized estimating equations. JASA (with Xihong Lin).
      PDF File - PostScript
    • Estimation in an additive model when components are linked parametrically. Econometric Theory (with Wolfgang Haerdle and Enno Mammen).
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    • Berry, S. A., Carroll, R. J. \& Ruppert, D. (2002). Bayesian smoothing for measurement error problems. Total Least Squares and Errors--in--Variables Modeling: Analysis, Algorithms and Applications, editors S. van Huffel and P. Lemmerling}. Kluwer Academic Publishers. (With S. Berry and D. Ruppert).
      PDF File - PostScript
    • Covariate measurement error adjustment for matched case-control studies. Biometrics, 57, 62-73 (with Lisa McShane, Doug Midthune, J. Dorgan and Larry Freedman).
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  • Selected Papers in 2001
    • Parametric and nonparametric methods for understanding the relationship between carcinogen--induced DNA adduct levels in distal and proximal regions of the colon. JASA (with Jeffrey Morris, Naisyin Wang, Joanne Lupton, Nancy Turner, Mee-Young Hong and Robert Chapkin).
      PDF File - PostScript
    • A note on the efficiency of sandwich covariance estimation. JASA (with Goeran Kauermann).
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    • Thyroid Cancer Following Scalp Irradiation: A Reanalysis Accounting for Uncertainty in Dosimetry. Biometrics (with Dan Schafer, Elaine Ron, Jay Lubin and Marilyn Stovall).
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    • Semiparametric regression for clustered data with a nonparametric cluster--level component. Biometrika (with Xihong Lin).
      PDF File - PostScript
    • Parameterization and inference for nonparametric regression problems. Journal of the Royal Statistical Society Series B (with Wenxin Jiang, Victor Kipnis and Doug Midthune).
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    • Review times in Statistics: tilting at windmills? (Biometrics)
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    • Bootstrap confidence intervals for local likelihood, local estimating equations and varying coefficient models. Statistica Sinica (with C. Galindo, G. Kauermann and H. Liang)
      PDF File - PostScript
    • Combining datasets to predict the effects of regulation of environmental lead exposure in housing stock. Biometrics (with W. Strauss, S. Bortnick, J. Menkedick and B Schulz)
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    • Empirical evidence of correlated biases in dietary instruments and its implication. American Journal of Epidemiology (with V. Kipnis, L. Freedman and D. Midthune).
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    • Discussion of the JASA paper by Lin and Ying (with Xihong Lin)
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    • Semiparametric Regression for Clustered Data Using Generalized Estimating Equations. JASA, 96, 1045-1054. (with Xihong Lin)
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  • Selected Papers in 2000
      Nonparametric Function Estimation for Clustered Data When the Predictor is Measured Without/With Error. JASA (with Xihong Lin)
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    • Nonparametric Function Estimation of the Relationship Between Two Repeatedly Measured Variables. Statistica Sinica (with Andreas Ruckstuhl and Alan Welsh)
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    • Random effects in interval-censored ordinal regression: latent structure and Bayesian approach. Biometrics 56, 376-383 (with Minge Xie and Douglas Simpson).
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    • On Meta-Analytic Assessment of Surrogate Outcomes. Biostatistics (with Mitchell H. Gail, Ruth Pfeiffer and Hans C. van Houwelingen)
      PDF File - PostScript
    • Score tests for familial correlation in genotyped proband designs. Genetic Epidemiology (with M. H. Gail, D. Pee and J. Benichou)
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    • Spatially adaptive penalties for spline fitting. Australian Journal of Statistics (with David Ruppert)
      PDF File - Correcttion
    • Conditional and Unconditional Categorical Regression Models With Missing Covariates. Biometrics (with Glen Satten)
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    • Efficient Regression Calibration for Logistic Regression in Main Study/Internal Validation Study Designs with an Imperfect Reference Instrument Statistics in Medicine (with Donna Spiegelman and Victor Kipnis)
      PDF File - PostScript
    • Phase II clinical trial design for noncytotoxic anticancer agents for which time to disease progression is the primary endpoint Controlled Clinical Trials (with Rosie Mick and John Crowley)
      PDF File - PostScript
  • Selected Papers in 1999
    • Large sample theory in a semiparametric partially linear errors in variables model. Annals of Statistics (with Hua Liang and Wolfgang Haerdle)
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    • SIMEX variance component tests in generalized linear mixed measurement error models. Biometrics (with Xihong Lin)
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    • The efficiency of bias--corrected estimators for nonparametric kernel estimation based local estimating equations.
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    • Polynomial regression and estimating functions in the presence of multiplicative measurement error. JRSSB (with Steve Iturria and David Firth)
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    • Nonparametric regression in the presence of measurement error Biometrika (with Jeff Maca and David Ruppert)
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    • Flexible parametric measurement error models. Biometrics (with Kathryn Roeder and Larry Wasserman)
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    • High-order asymptotics for retrospective sampling problems. Biometrika (with Suojin Wang)
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  • Old Favorite Papers
    • Deconvolution kernel density estimators. Statistics, 1990 (with Len Stefanski)
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    • Generalized partially linear single-index models. JASA, 1997, pp 477-- (with J. Fan, M. Wand and I. Gijbels)
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    • Asymptotics for prospective analysis of stratified logistic case-control studies. (JASA, 1995, with C. Y. Wang and Suojin Wang)
      PDF file
    • A nonparametric mixture approach to case-control studies with errors in covariables. JASA, 1996 (with Kathryn Roeder and Bruce Lindsay)
      PDF
    • The use and misuse of orthogonal regression estimation in linear errors-in-variables models.
      PostScript
    • Local Estimating Equations (JASA, 1998, with David Ruppert and Alan Welsh)
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  • Papers 1998 or previously
    • On robustness in the logistic regression model.
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    • Robust linear regression in replicated measurement error models.
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    • Robust estimation in case-control studies with errors in predictors.
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    • Estimation of lag in misregistration problems for averaged signals.
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    • Meta-analysis, measurement error and corrections for attenuation.
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    • A semiparametric correction for attenuation.
      PostScript
    • Adjusting for time trends when estimating the relationship between dietary intake obtained from a food frequency questionnaire and true average intake.
      PostScript
    • Transformation to additivity in measurement error models. Biometrics, 1997, 53, 262-272 (with Stephen Eckert and Naisyin Wang)
      PDF file
    • Binary regressors in dimension reduction models: a new look at treatment comparisons.
      PostScript
    • Dimension reduction in semiparametric measurement error models.
      PostScript
    • Estimating the reliability of an exposure variable in the presence of confounders.
    • Analysis of tomato root initiation using a mixture normal distribution.
      PostScript
    • Quasilikelihood estimation in measurement error models with correlated replicates.
      PostScript
    • Asymptotics for the SIMEX estimator in structural measurement error models. (JASA, 1996, with Fred Lombard, Helmut Kuechenhoff and Len Stefanski)
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    • Estimation in choice-based sampling with measurement error and bootstrap analysis. Journal of Econometrics, 1997, with C.Y. Wang and S. Wang
      PDF file
    • The use of semiquantitative food frequency questionnaires to estimate the distribution of usual intake.
      PostScript
    • Review of Measurement, Regression and Calibration.
      PostScript
    • Interval censoring and marginal analysis in ordinal regression.
      PostScript
    • Segmented regression with errors in predictors.
      PostScript
    • Application of robust methods in combining toxicology data from diverse studies.
      PostScript
    • Analyzing bivariate continuous data that have been grouped into categories defined by sample quantiles of the marginal distribution.
      PDF File
    • Design aspects of calibration studies in nutrition, with analysis of missing data in linear measurement error models.
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    • Measurement Error in Epidemiologic Studies
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    • Nonparametric Function Estimation of the Relationship Between Two Repeatedly Measured Variables
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    • A New Class of Measurement Error Models, With Applications to Dietary Data
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    • The Efficiency of Bias-Corrected Estimators for Nonparametric Kernel Estimation Based on Local Estimating Equations
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    • Large sample theory in a semiparametric partially linear errors in variables model.
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    • Bias analysis and SIMEX approach in generalized linear mixed measurement error models.
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    • Measurement error, biases, and the validation of complex models for blood lead levels in children.
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