Publications

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Zhang, Jianrong, Wenhua Liang, Hengrui Liang, Xiaofei Wang, and Jianxing He. "Endpoint surrogacy in oncological randomized controlled trials with immunotherapies: a systematic review of trial-level and arm-level meta-analyses." Ann Transl Med 7, no. 11 (2019): 244.
Zhou, Yi-Hui, William T. Barry, and Fred A. Wright. "Empirical pathway analysis, without permutation." Biostatistics 14, no. 3 (2013): 573-85.
Tang, Niansheng, Puying Zhao, and Hongtu Zhu. "Empirical Likelihood for Estimating Equations with Nonignorably Missing Data." Stat Sin 24, no. 2 (2014): 723-747.
Chen, Yong, Sheng Luo, Haitao Chu, Xiao Su, and Lei Nie. "An Empirical Bayes Method for Multivariate Meta-analysis with an Application in Clinical Trials." Commun Stat Theory Methods 43, no. 16 (2014): 3536-3551.
S Farber, Harrison, Vadim Tsvankin, Jessica L. Narloch, Grace J. Kim, April K. S. Salama, Gordana Vlahovic, Kimberly L. Blackwell, John P. Kirkpatrick, and Peter E. Fecci. "Embracing rejection: Immunologic trends in brain metastasis." Oncoimmunology 5, no. 7 (2016): e1172153.
Boland, Mary Regina. Electronic Health Records and Precision Medicine: Enabling Large-Scale Discoveries Using Phenome-Wide Approaches., 2016.
Gong, Siliang, Kai Zhang, and Yufeng Liu. "Efficient test-based variable selection for high-dimensional linear models." J Multivar Anal 166 (2018): 17-31.
X Jeng, Jessie, Teng Zhang, and Jung-Ying Tzeng. "Efficient Signal Inclusion With Genomic Applications." J Am Stat Assoc 114, no. 528 (2019): 1787-1799.
Tao, Ran, Donglin Zeng, and Dan-Yu Lin. "Efficient Semiparametric Inference Under Two-Phase Sampling, With Applications to Genetic Association Studies." J Am Stat Assoc 112, no. 520 (2017): 1468-1476.
Diao, Guoqing, Donglin Zeng, and Song Yang. "Efficient semiparametric estimation of short-term and long-term hazard ratios with right-censored data." Biometrics 69, no. 4 (2013): 840-9.
Bondell, Howard D., and Leonard A. Stefanski. "Efficient Robust Regression via Two-Stage Generalized Empirical Likelihood." J Am Stat Assoc 108, no. 502 (2013): 644-655.
Diao, Guoqing, Guanghan F. Liu, Donglin Zeng, William Wang, Xianming Tan, Joseph F. Heyse, and Joseph G. Ibrahim. "Efficient methods for signal detection from correlated adverse events in clinical trials." Biometrics 75, no. 3 (2019): 1000-1008.
Daniel, Rhian M., and Anastasios A. Tsiatis. "Efficient estimation of the distribution of time to composite endpoint when some endpoints are only partially observed." Lifetime Data Anal 19, no. 4 (2013): 513-46.
Mao, Lu, and D Y. Lin. "Efficient Estimation of Semiparametric Transformation Models for the Cumulative Incidence of Competing Risks." J R Stat Soc Series B Stat Methodol 79, no. 2 (2017): 573-587.
Zeng, Donglin, and D Y. Lin. "Efficient Estimation of Semiparametric Transformation Models for Two-Phase Cohort Studies." J Am Stat Assoc 109, no. 505 (2014): 371-383.
Wang, Yuanjia, Baosheng Liang, Xingwei Tong, Karen Marder, Susan Bressman, Avi Orr-Urtreger, Nir Giladi, and Donglin Zeng. "Efficient Estimation of Nonparametric Genetic Risk Function with Censored Data." Biometrika 102, no. 3 (2015): 515-532.
Li, Zhiguo, Jiaxing Lin, Alexander B. Sibley, Tracy Truong, Katherina C. Chua, Yu Jiang, Janice McCarthy, Deanna L. Kroetz, Andrew Allen, and Kouros Owzar. "Efficient estimation of grouped survival models." BMC Bioinformatics 20, no. 1 (2019): 269.
Wong, Kin Yau, Donglin Zeng, and D Y. Lin. "Efficient Estimation for Semiparametric Structural Equation Models With Censored Data." J Am Stat Assoc 113, no. 522 (2018): 893-905.
Kang, Suhyun, Wenbin Lu, and Mengling Liu. "Efficient estimation for accelerated failure time model under case-cohort and nested case-control sampling." Biometrics 73, no. 1 (2017): 114-123.
Zhao, Ying-Qi, Eric B. Laber, Yang Ning, Sumona Saha, and Bruce E. Sands. "Efficient augmentation and relaxation learning for individualized treatment rules using observational data." J Mach Learn Res 20 (2019).
X Jeng, Jessie, Jacob Rhyne, Teng Zhang, and Jung-Ying Tzeng. "Effective SNP ranking improves the performance of eQTL mapping." Genet Epidemiol 44, no. 6 (2020): 611-619.
Yao, F, E Lei, and Y Wu. "Effective dimension reduction for sparse functional data." Biometrika 102, no. 2 (2015): 421-437.
Stinchcombe, Thomas E., Pasi A. Jänne, Xiaofei Wang, Erin M. Bertino, Jared Weiss, Lyudmila Bazhenova, Lin Gu, Christie Lau, Cloud Paweletz, Anthony Jaslowski et al. "Effect of Erlotinib Plus Bevacizumab vs Erlotinib Alone on Progression-Free Survival in Patients With Advanced EGFR-Mutant Non-Small Cell Lung Cancer: A Phase 2 Randomized Clinical Trial." JAMA Oncol 5, no. 10 (2019): 1448-1455.
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Holloway, Shannon T., Eric B. Laber, Kristin A. Linn, Baqun Zhang, Marie Davidian, and Anastasios A. Tsiatis. DynTxRegime: A comprehensive package for analysis of dynamic treatment regimes (R).. v3.1 ed., 2017.
Laber, Eric B., Daniel J. Lizotte, Min Qian, William E. Pelham, and Susan A. Murphy. "Dynamic treatment regimes: technical challenges and applications." Electron J Stat 8, no. 1 (2014): 1225-1272.
Tsiatis, Anastasios A., Marie Davidian, Shannon T. Holloway, and Eric B. Laber. Dynamic Treatment Regimes: Statistical Methods for Precision Medicine In Chapman & Hall/CRC Monographs on Statistics and Applied Probability. Boca Raton: Chapman and Hall/CRC, 2019.
Laber, Eric B., and Marie Davidian. "Dynamic treatment regimes, past, present, and future: A conversation with experts." Stat Methods Med Res 26, no. 4 (2017): 1605-1610.
Davidian, Marie, Anastasios A. Tsiatis, and Eric B. Laber. "Dynamic treatment regimes." In Cancer Clinical Trials: Current and Controversial Issues in Design and Analysis. Boca Raton: Chapman & Hall / CRC Press, 2016.
Wang, Xiaofei, Ming-Hui Chen, R C. Kuo, and Dipak K. Dey. "Dynamic spatial pattern recognition in count data." In New Developments in Statistical Modeling, Inference and Application, 185-202. New York: Springer, 2016.
Hess, Connie N., Phillip J. Schulte, Kristin L Newby, Philippe Gabriel Steg, Anthony J. Dalby, Marc J. Schweiger, Basil S. Lewis, Paul W. Armstrong, Robert M. Califf, Frans van de Werf et al. "Duration of eptifibatide infusion after percutaneous coronary intervention and outcomes among high-risk patients with non-ST-segment elevation acute coronary syndrome: insights from EARLY ACS." Eur Heart J Acute Cardiovasc Care 2, no. 3 (2013): 246-55.
Holloway, Shannon, and Hunyong Cho. dtrSurv: Dynamic Treatment Regimes for Survival Analysis (R). 1.1 ed., 2020.
Liu, Ying, Yuanjia Wang, and Donglin Zeng. DTRlearn: Learning Algorithms for Dynamic Treatment Regimes (R). 1.3 ed., 2018.
Oguz, Ipek, Mahshid Farzinfar, Joy Matsui, Francois Budin, Zhexing Liu, Guido Gerig, Hans J. Johnson, and Martin Styner. "DTIPrep: quality control of diffusion-weighted images." Front Neuroinform 8 (2014): 4.
Madigan, D. Drug safety in spontaneous reports, observational databases, and clinical trials: Can we do better?., 2011.
Line, Danyu, Donglin Zeng, and Shannon T. Holloway. DOVE: Durability of Vaccine Efficacy. v1.2 ed., 2021.
Bai, Xiaofei, Anastasios A. Tsiatis, and Sean M. O'Brien. "Doubly-robust estimators of treatment-specific survival distributions in observational studies with stratified sampling." Biometrics 69, no. 4 (2013): 830-9.
Tsiatis, Anastasios A., Marie Davidian, Weihua Cao, and Shannon T. Holloway. doublyRobust: Doubly robust estimation for monotonely coarsened data in longitudinal studies with dropout and/or incomplete data (R).. 2nd ed., 2013.
Zhao, Y Q., D Zeng, E B. Laber, R Song, M Yuan, and M R. Kosorok. "Doubly Robust Learning for Estimating Individualized Treatment with Censored Data." Biometrika 102, no. 1 (2015): 151-168.
Yang, Shu, Jae Kwang Kim, and Rui Song. "Doubly robust inference when combining probability and non-probability samples with high dimensional data." J R Stat Soc Series B Stat Methodol 82, no. 2 (2020): 445-465.
Jiang, Runchao, Wenbin Lu, Rui Song, Michael G. Hudgens, and Sonia Naprvavnik. "DOUBLY ROBUST ESTIMATION OF OPTIMAL TREATMENT REGIMES FOR SURVIVAL DATA-WITH APPLICATION TO AN HIV/AIDS STUDY." Ann Appl Stat 11, no. 3 (2017): 1763-1786.
Chen, Jingxiang, Chong Zhang, Michael R. Kosorok, and Yufeng Liu. "Double Sparsity Kernel Learning with Automatic Variable Selection and Data Extraction." Stat Interface 11, no. 3 (2018): 401-420.
Chiuzan, Cody, Jonathan Shtaynberger, Gulam A. Manji, Jimmy K. Duong, Gary K. Schwartz, Anastasia Ivanova, and Shing M. Lee. "Dose-finding designs for trials of molecularly targeted agents and immunotherapies." J Biopharm Stat 27, no. 3 (2017): 477-494.
Kong, Dehan, Howard Bondell, and Yichao Wu. "Domain selection for the varying coefficient model via local polynomial regression." Comput Stat Data Anal 83 (2015): 236-250.
Huang, Chao, Liang Shan, Cecil Charles, Marc Niethammer, and Hongtu Zhu. "Diseased region detection of longitudinal knee MRI data." Inf Process Med Imaging 23 (2013): 632-43.
Huang, Chao, Liang Shan, Cecil H Charles, Wolfgang Wirth, Marc Niethammer, and Hongtu Zhu. "Diseased Region Detection of Longitudinal Knee Magnetic Resonance Imaging Data." IEEE Trans Med Imaging 34, no. 9 (2015): 1914-27.
Wang, Jiaping, Haipeng Shen, and Hongtu Zhu. "Discussion of the paper "Clustering Random Curves Under Spatial Interdependence with Application to Service Accessibility" by Jiang and Serban." Technometrics 54, no. 2 (2012): 129-133.
Lin, D Y.. "Discussion of the Paper by R. L. Prentice and Y. Huang - Optimal Designs and Efficient Inference for Biomarker Studies." Stat Theory Relat Fields 2, no. 1 (2018): 21-22.
Lawson, Michael T., Hunyong Cho, Arkopal Choudhury, Yifan Cui, Xiaotong Jiang, Teeranan Pokaprakarn, and Michael R. Kosorok. "Discussion of Laber et al. "Optimal treatment allocations in space and time for on-line control of an emerging infectious disease"." J R Stat Soc Ser C Appl Stat 67, no. 4 (2018): 779-780.
Tsiatis, Anastasios A., and Marie Davidian. "Discussion of "Connections Between Survey Calibration Estimators and Semiparametric Models for Incomplete Data" by T. Lumley, P.A. Shaw & J.Y. Dai." Int Stat Rev 79, no. 2 (2011): 221-223.
Zhao, Ying-Qi, and Michael R. Kosorok. "Discussion of combining biomarkers to optimize patient treatment recommendations." Biometrics 70, no. 3 (2014): 713-6.
Laber, Eric B., Anastasios A. Tsiatis, Marie Davidian, and Shannon T. Holloway. "Discussion of "Combining biomarkers to optimize patient treatment recommendation"." Biometrics 70, no. 3 (2014): 707-10.
Walter, Vonn, Andrew B. Nobel, and Fred A. Wright. DiNAMIC: Discovering copy number aberrations manifested in cancer (R).., 2011.
Walter, Vonn, Andrew B. Nobel, and Fred A. Wright. "DiNAMIC: a method to identify recurrent DNA copy number aberrations in tumors." Bioinformatics 27, no. 5 (2011): 678-85.
Shi, Yundi, Sarah J. Short, Rebecca C. Knickmeyer, Jiaping Wang, Christopher L. Coe, Marc Niethammer, John H. Gilmore, Hongtu Zhu, and Martin A. Styner. "Diffusion tensor imaging-based characterization of brain neurodevelopment in primates." Cereb Cortex 23, no. 1 (2013): 36-48.
Potthoff, Richard F.. "Differential losses to follow-up that are outcome-dependent can vitiate a clinical trial: Simulation results." J Biopharm Stat 28, no. 4 (2018): 633-644.
Yimit, Askar, Ogun Adebali, Aziz Sancar, and Yuchao Jiang. "Differential damage and repair of DNA-adducts induced by anti-cancer drug cisplatin across mouse organs." Nat Commun 10, no. 1 (2019): 309.
Williams, Lindsay A., Katherine A. Hoadley, Hazel B. Nichols, Joseph Geradts, Charles M. Perou, Michael I. Love, Andrew F. Olshan, and Melissa A. Troester. "Differences in race, molecular and tumor characteristics among women diagnosed with invasive ductal and lobular breast carcinomas." Cancer Causes Control 30, no. 1 (2019): 31-39.
Zhu, Hongtu, Joseph G. Ibrahim, and Ming-Hui Chen. "Diagnostic Measures for the Cox Regression Model with Missing Covariates." Biometrika 102, no. 4 (2015): 907-923.
Simon, R. Development of Predictive Biomarkers for Molecular Targeted Therapy., 2012.
Wang, Fan, Richard L. Schilsky, David Page, Robert M. Califf, Kei Cheung, Xiaofei Wang, and Herbert Pang. "Development and Validation of a Natural Language Processing Tool to Generate the CONSORT Reporting Checklist for Randomized Clinical Trials." JAMA Netw Open 3, no. 10 (2020): e2014661.
Shi, Chengchun, Wenbin Lu, and Rui Song. "Determining the Number of Latent Factors in Statistical Multi-Relational Learning." J Mach Learn Res 20 (2019).
Hung, Hung, Yu-Ting Lin, Penweng Chen, Chen-Chien Wang, Su-Yun Huang, and Jung-Ying Tzeng. "Detection of gene-gene interactions using multistage sparse and low-rank regression." Biometrics 72, no. 1 (2016): 85-94.
Chen, Ting-Huei, Wei Sun, and Jason P. Fine. "Designing penalty functions in high dimensional problems: The role of tuning parameters." Electron J Stat 10, no. 2 (2016): 2312-2328.
Psioda, Matthew, and Joseph G. Ibrahim. design_biomAR: Bayes adaptive randomization for the probit model (SAS).., 2016.
George, Stephen L.. "Design of phase III clinical trials." In Oncology Clinical Trials: Successful Design, Conduct, and Analysis. New York: Demos Medical Publishing, LLC, 2010.
Jung, Sin-Ho. "Design of Phase II Non-inferiority Trials." Contemp Clin Trials Commun 7 (2017): 23-27.
Chen, Liddy M.. Design consideration for complex survival models., 2011.
Liang, Shuhan, Wenbin Lu, and Rui Song. "Deep advantage learning for optimal dynamic treatment regime." Stat Theory Relat Fields 2, no. 1 (2018): 80-88.
Carpenter, William R.. Data needs for cancer comparative effectiveness research, and the Integrated Cancer Information and Surveillance System., 2012.
George, Stephen L., and Marc Buyse. "Data fraud in clinical trials." Clin Investig (Lond) 5, no. 2 (2015): 161-173.
Meyer, Anne-Marie, William R. Carpenter, Amy P. Abernethy, Til Stürmer, and Michael R. Kosorok. "Data for cancer comparative effectiveness research: past, present, and future potential." Cancer 118, no. 21 (2012): 5186-97.
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Ibrahim, Joseph G., and Matthew Psioda. CureBayes: Bayesian phase 3 design using the cure rate model. (SAS and R)., 2017.
Jung, Sin-Ho. CTD Systems (Java)., 2017.
Li, Meng, Ana-Maria Staicu, and Howard D. Bondell. cSFM: Covariate-adjusted skewed functional model (R).. 1.1 ed., 2014.
Bayar, Mohamed, Anastasia Ivanova, and Gwenael Le Teuff. CRM2DIM: Dual-Agent Bayesian Continual Reassessment Method (SAS). 1.0 ed., 2019.
Bayar, Mohamed Amine, Anastasia Ivanova, and Gwenael Le Teuff. "CRM2DIM: A SAS macro for implementing the dual-agent Bayesian continual reassessment method." Comput Methods Programs Biomed 176 (2019): 211-223.
Griffin, Lauren, Donghee Lee, Alyssa Jaisle, Peter Carek, Thomas George, Eric Laber, Benjamin Lok, François Modave, Electra Paskett, and Janice Krieger. "Creating an mHealth App for Colorectal Cancer Screening: User-Centered Design Approach." JMIR Hum Factors 6, no. 2 (2019): e12700.
Cornea, Emil, Bahjat Qaqish, and Joseph G. Ibrahim. CR: Power calculation for weighted log-rank tests in cure rate models (R).., 2012.
Zeng, Donglin, Ming-Hui Chen, Joseph G. Ibrahim, Rachel Wei, Beiying Ding, Chunlei Ke, and Qi Jiang. "A counterfactual p-value approach for benefit-risk assessment in clinical trials." J Biopharm Stat 25, no. 3 (2015): 508-24.
Gao, Qibing, Mihye Ahn, and Hongtu Zhu. "Cook's Distance Measures for Varying Coefficient Models with Functional Responses." Technometrics 57, no. 2 (2015): 268-280.
Li, Xiang, Anastasia Ivanova, Hong Tian, Pilar Lim, and Kevin Liu. "Continual reassessment method with regularization in phase I clinical trials." J Biopharm Stat 30, no. 6 (2020): 964-978.
Zhang, Xiang, Yichao Wu, Lan Wang, and Runze Li. "A Consistent Information Criterion for Support Vector Machines in Diverging Model Spaces." J Mach Learn Res 17, no. 16 (2016): 1-26.
Bondell, Howard D., and Brian J. Reich. "Consistent high-dimensional Bayesian variable selection via penalized credible regions." J Am Stat Assoc 107, no. 500 (2012): 1610-1624.
Sharma, Dhruv B., Howard D. Bondell, and Hao Helen Zhang. "Consistent Group Identification and Variable Selection in Regression with Correlated Predictors." J Comput Graph Stat 22, no. 2 (2013): 319-340.
McCabe, Sean D., Dan-Yu Lin, and Michael I. Love. "Consistency and overfitting of multi-omics methods on experimental data." Brief Bioinform 21, no. 4 (2020): 1277-1284.
Yu, Fang, Ming-Hui Chen, Lynn Kuo, Heather Talbott, and John S. Davis. "Confident difference criterion: a new Bayesian differentially expressed gene selection algorithm with applications." BMC Bioinformatics 16 (2015): 245.
Gunes, Funda, and Howard D. Bondell. "A Confidence Region Approach to Tuning for Variable Selection." J Comput Graph Stat 21, no. 2 (2012): 295-314.
Brucker, Amanda, Shannon T. Holloway, and Jung-Ying Tzeng. CONCUR: Kernel-based association test for copy number variation (CNV) aggregate analysis (R)., 2020.
Fan, Caiyun, Wenbin Lu, Rui Song, and Yong Zhou. "Concordance-Assisted Learning for Estimating Optimal Individualized Treatment Regimes." J R Stat Soc Series B Stat Methodol 79, no. 5 (2017): 1565-1582.
Zhou, Jie, Jiajia Zhang, and Wenbin Lu. "Computationally Efficient Estimation for the Generalized Odds Rate Mixture Cure Model with Interval-Censored Data." J Comput Graph Stat 27, no. 1 (2018): 48-58.
Chen, Yong, Yulun Liu, Jing Ning, Lei Nie, Hongjian Zhu, and Haitao Chu. "A composite likelihood method for bivariate meta-analysis in diagnostic systematic reviews." Stat Methods Med Res 26, no. 2 (2017): 914-930.
Chen, Guanhua, Yufeng Liu, Dinggang Shen, and Michael R. Kosorok. "Composite large margin classifiers with latent subclasses for heterogeneous biomedical data." Stat Anal Data Min 9, no. 2 (2016): 75-88.
He, Kevin, Yanming Li, Ji Zhu, Hongliang Liu, Jeffrey E. Lee, Christopher I. Amos, Terry Hyslop, Jiashun Jin, Huazhen Lin, Qinyi Wei et al. "Component-wise gradient boosting and false discovery control in survival analysis with high-dimensional covariates." Bioinformatics 32, no. 1 (2016): 50-7.
Wang, Zhi, Arnab Maity, Yiwen Luo, Megan L. Neely, and Jung-Ying Tzeng. "Complete effect-profile assessment in association studies with multiple genetic and multiple environmental factors." Genet Epidemiol 39, no. 2 (2015): 122-33.
Blackwell, Kimberly, Roman Donskih, Michael C Jones, Allen Nixon, Maria J. Vidal, Roumen Nakov, Pritibha Singh, Gregor Schaffar, Pere Gascón, and Nadia Harbeck. "A Comparison of Proposed Biosimilar LA-EP2006 and Reference Pegfilgrastim for the Prevention of Neutropenia in Patients With Early-Stage Breast Cancer Receiving Myelosuppressive Adjuvant or Neoadjuvant Chemotherapy: Pegfilgrastim Randomized Oncology (Supp." Oncologist 21, no. 7 (2016): 789-94.
Kwak, Minjung, Sang-Won Um, and Sin-Ho Jung. "Comparison of operational characteristics for binary tests with clustered data." Stat Med 34, no. 15 (2015): 2325-33.
Liu, Yang, Guanyu Hu, Lei Cao, Xiaojing Wang, and Ming-Hui Chen. "A Comparison of Monte Carlo Methods for Computing Marginal Likelihoods of Item Response Theory Models." J Korean Stat Soc 48, no. 4 (2019): 503-512.
Li, Zhiguo. "Comparison of adaptive treatment strategies based on longitudinal outcomes in sequential multiple assignment randomized trials." Stat Med 36, no. 3 (2017): 403-415.
Parke, Tom, Olga Marchenko, Vladimir Anisimov, Anastasia Ivanova, Christopher Jennison, Inna Perevozskaya, and Guochen Song. "Comparing oncology clinical programs by use of innovative designs and expected net present value optimization: Which adaptive approach leads to the best result?" J Biopharm Stat 27, no. 3 (2017): 457-476.
Sanoff, Hanna K., William R. Carpenter, Christopher F. Martin, Daniel J. Sargent, Jeffrey A. Meyerhardt, Til Stürmer, Jason P. Fine, Jane Weeks, Joyce Niland, Katherine L. Kahn et al. "Comparative effectiveness of oxaliplatin vs non-oxaliplatin-containing adjuvant chemotherapy for stage III colon cancer." J Natl Cancer Inst 104, no. 3 (2012): 211-27.

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