Publications

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Van den Berge, Koen, Fanny Perraudeau, Charlotte Soneson, Michael I. Love, Davide Risso, Jean-Philippe Vert, Mark D. Robinson, Sandrine Dudoit, and Lieven Clement. "Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications." Genome Biol 19, no. 1 (2018): 24.
Van den Berge, Koen, Fanny Perraudeau, Charlotte Soneson, Michael I. Love, Davide Risso, Jean-Philippe Vert, Mark D. Robinson, Sandrine Dudoit, and Lieven Clement. "Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications." Genome Biol 19, no. 1 (2018): 24.
Van den Berge, Koen, Fanny Perraudeau, Charlotte Soneson, Michael I. Love, Davide Risso, Jean-Philippe Vert, Mark D. Robinson, Sandrine Dudoit, and Lieven Clement. "Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications." Genome Biol 19, no. 1 (2018): 24.
Ivanova, Anastasia. Oncology Phase II trials with ordinal outcome., 2012.
Kwak, Minjung, Jinseog Kim, and Sin-Ho Jung. "Optimal estimation for regression models on τ-year survival probability." J Biopharm Stat 25, no. 3 (2015): 539-47.
Kwak, Minjung, Jinseog Kim, and Sin-Ho Jung. "Optimal estimation for regression models on τ-year survival probability." J Biopharm Stat 25, no. 3 (2015): 539-47.
Kwak, Minjung, Jinseog Kim, and Sin-Ho Jung. "Optimal estimation for regression models on τ-year survival probability." J Biopharm Stat 25, no. 3 (2015): 539-47.
Bai, Xiaofei, Anastasios A. Tsiatis, Wenbin Lu, and Rui Song. "Optimal treatment regimes for survival endpoints using a locally-efficient doubly-robust estimator from a classification perspective." Lifetime Data Anal 23, no. 4 (2017): 585-604.
Geng, Yuan, Hao Helen Zhang, and Wenbin Lu. "On optimal treatment regimes selection for mean survival time." Stat Med 34, no. 7 (2015): 1169-84.
Geng, Yuan, Hao Helen Zhang, and Wenbin Lu. "On optimal treatment regimes selection for mean survival time." Stat Med 34, no. 7 (2015): 1169-84.
Rosenblum, M. Optimal, Two Stage, Adaptive Enrichment Designs for Randomized Trials, using Sparse Linear Programming., 2014.
Hager, Rebecca, Anastasios A. Tsiatis, and Marie Davidian. "Optimal two-stage dynamic treatment regimes from a classification perspective with censored survival data." Biometrics 74, no. 4 (2018): 1180-1192.
Hager, Rebecca, Anastasios A. Tsiatis, and Marie Davidian. "Optimal two-stage dynamic treatment regimes from a classification perspective with censored survival data." Biometrics 74, no. 4 (2018): 1180-1192.
Kwak, Minjung, and Sin-Ho Jung. "Optimal two-stage log-rank test for randomized phase II clinical trials." J Biopharm Stat 27, no. 4 (2017): 639-658.
Kwak, Minjung, and Sin-Ho Jung. "Optimal two-stage log-rank test for randomized phase II clinical trials." J Biopharm Stat 27, no. 4 (2017): 639-658.
Fine, Jason P.. An overview of competing risks data, with applications in clinical trials., 2011.
Heyse, Joseph F.. An Overview of Multiple Testing Procedures for Categorical Data., 2014.
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Ha, Min Jin, and Wei Sun. "Partial correlation matrix estimation using ridge penalty followed by thresholding and re-estimation." Biometrics 70, no. 3 (2014): 765-73.
Ha, Min Jin, and Wei Sun. "Partial correlation matrix estimation using ridge penalty followed by thresholding and re-estimation." Biometrics 70, no. 3 (2014): 765-73.
Pang, Herbert, Michael Hauser, and Stéphane Minvielle. "Pathway-based identification of SNPs predictive of survival." Eur J Hum Genet 19, no. 6 (2011): 704-9.
Song, Rui. Penalized Q-Learning for Dynamic Treatment Regimes., 2012.
Chu, Haitao, Eric T. Lofgren, Elizabeth M Halloran, Pei F. Kuan, Michael Hudgens, and Stephen R. Cole. "Performance of rapid influenza H1N1 diagnostic tests: a meta-analysis." Influenza Other Respir Viruses 6, no. 2 (2012): 80-6.
Shterev, Ivo D., Sin-Ho Jung, Stephen L. George, and Kouros Owzar. "permGPU: Using graphics processing units in RNA microarray association studies." BMC Bioinformatics 11 (2010): 329.
Auman, Todd. Pharmacogenomic interrogation of colorectal cancer using next-generation whole exome sequencing., 2011.
Jung, Sin-Ho. "Phase II cancer clinical trials for biomarker-guided treatments." J Biopharm Stat 28, no. 2 (2018): 256-263.
Jung, Sin-Ho, Myron N. Chang, and Sun J. Kang. "Phase II cancer clinical trials with heterogeneous patient populations." J Biopharm Stat 22, no. 2 (2012): 312-28.
Kwak, Minjung, and Sin-Ho Jung. "Phase II clinical trials with time-to-event endpoints: optimal two-stage designs with one-sample log-rank test." Stat Med 33, no. 12 (2014): 2004-16.
Musolino, Antonino, Mario Campone, Patrick Neven, Neelima Denduluri, Carlos H. Barrios, Javier Cortes, Kimberly Blackwell, Hatem Soliman, Zsuzsanna Kahan, Hervé Bonnefoi et al. "Phase II, randomized, placebo-controlled study of dovitinib in combination with fulvestrant in postmenopausal patients with HR, HER2 breast cancer that had progressed during or after prior endocrine therapy." Breast Cancer Res 19, no. 1 (2017): 18.
Jung, Sin-Ho, and Stanley S Young. "Power and sample size calculation for microarray studies." J Biopharm Stat 22, no. 1 (2012): 30-42.
Owzar, Kouros, Zhiguo Li, Nancy Cox, and Sin-Ho Jung. "Power and sample size calculations for SNP association studies with censored time-to-event outcomes." Genet Epidemiol 36, no. 6 (2012): 538-48.
Owzar, Kouros, Zhiguo Li, Nancy Cox, and Sin-Ho Jung. "Power and sample size calculations for SNP association studies with censored time-to-event outcomes." Genet Epidemiol 36, no. 6 (2012): 538-48.
Owzar, Kouros, Zhiguo Li, Nancy Cox, and Sin-Ho Jung. "Power and sample size calculations for SNP association studies with censored time-to-event outcomes." Genet Epidemiol 36, no. 6 (2012): 538-48.
Ibrahim, Joseph G., Ming-Hui Chen, Yeongjin Gwon, and Fang Chen. "The power prior: theory and applications." Stat Med 34, no. 28 (2015): 3724-49.
Cao, Xiaowen, Apar Kishor Ganti, Thomas Stinchcombe, Melisa L. Wong, James C. Ho, Chen Shen, Yingzhou Liu, Jeffery Crawford, Herbert Pang, and Xiaofei Wang. "Predicting risk of chemotherapy-induced severe neutropenia: A pooled analysis in individual patients data with advanced lung cancer." Lung Cancer 141 (2020): 14-20.
Bobashev, G. Prediction of the Best Treatment Assignment Using Random Forest with Regression in the Nodes., 2012.
Secord, Angeles Alvarez, Kirsten Bell Burdett, Kouros Owzar, David Tritchler, Alexander B. Sibley, Yingmiao Liu, Mark D. Starr, Chris J Brady, Heather A. Lankes, Herbert I. Hurwitz et al. "Predictive Blood-Based Biomarkers in Patients with Epithelial Ovarian Cancer Treated with Carboplatin and Paclitaxel with or without Bevacizumab: Results from GOG-0218." Clin Cancer Res 26, no. 6 (2020): 1288-1296.
Tang, Zheng-Zheng, Paul Bunn, Ran Tao, Zhouwen Liu, and Dan-Yu Lin. "PreMeta: a tool to facilitate meta-analysis of rare-variant associations." BMC Genomics 18, no. 1 (2017): 160.
Joeng, Hee-Koung, Ming-Hui Chen, and Sangwook Kang. "Proportional exponentiated link transformed hazards (ELTH) models for discrete time survival data with application." Lifetime Data Anal 22, no. 1 (2016): 38-62.
Tan, Hung-Jui, Anne-Marie Meyer, Tzy-Mey Kuo, Angela B. Smith, Stephanie B. Wheeler, William R. Carpenter, and Matthew E. Nielsen. "Provider-based research networks and diffusion of surgical technologies among patients with early-stage kidney cancer." Cancer 121, no. 6 (2015): 836-43.
Rashid, Naim U., Xianlu L. Peng, Chong Jin, Richard A. Moffitt, Keith E. Volmar, Brian A. Belt, Roheena Z. Panni, Timothy M. Nywening, Silvia G. Herrera, Kristin J. Moore et al. "Purity Independent Subtyping of Tumors (PurIST), A Clinically Robust, Single-sample Classifier for Tumor Subtyping in Pancreatic Cancer." Clin Cancer Res 26, no. 1 (2020): 82-92.
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Cobran, Ewan K., Ronald C. Chen, Robert Overman, Anne-Marie Meyer, Tzy-Mey Kuo, Jonathon O'Brien, Til Stürmer, Nathan C. Sheets, Gregg H. Goldin, Dolly C. Penn et al. "Racial Differences in Diffusion of Intensity-Modulated Radiation Therapy for Localized Prostate Cancer." Am J Mens Health 10, no. 5 (2016): 399-407.
Molenberghs, Geert, Michael G. Kenward, Marc Aerts, Geert Verbeke, Anastasios A. Tsiatis, Marie Davidian, and Dimitris Rizopoulos. "On random sample size, ignorability, ancillarity, completeness, separability, and degeneracy: sequential trials, random sample sizes, and missing data." Stat Methods Med Res 23, no. 1 (2014): 11-41.
Jung, Sin-Ho, and Daniel J. Sargent. "Randomized phase II clinical trials." J Biopharm Stat 24, no. 4 (2014): 802-16.
Zhang, Xiang, Shunping Huang, Wei Sun, and Wei Wang. "Rapid and robust resampling-based multiple-testing correction with application in a genome-wide expression quantitative trait loci study." Genetics 190, no. 4 (2012): 1511-20.
Luckett, Daniel J., Eric B. Laber, Samer S. El-Kamary, Cheng Fan, Ravi Jhaveri, Charles M. Perou, Fatma M. Shebl, and Michael R. Kosorok. "Receiver operating characteristic curves and confidence bands for support vector machines." Biometrics 77, no. 4 (2021): 1422-1430.
Wang, Charlotte, Jung-Ying Tzeng, Pei-Zhen Wu, Martin Preisig, and Chuhsing Kate Hsiao. "Reexamining Dis/Similarity-Based Tests for Rare-Variant Association with Case-Control Samples." Genetics 209, no. 1 (2018): 105-113.
Pan, Yinghao, Jianwen Cai, Sangmi Kim, and Haibo Zhou. "Regression analysis for secondary response variable in a case-cohort study." Biometrics 74, no. 3 (2018): 1014-1022.
Pan, Yinghao, Jianwen Cai, Sangmi Kim, and Haibo Zhou. "Regression analysis for secondary response variable in a case-cohort study." Biometrics 74, no. 3 (2018): 1014-1022.
Pan, Yinghao, Jianwen Cai, Sangmi Kim, and Haibo Zhou. "Regression analysis for secondary response variable in a case-cohort study." Biometrics 74, no. 3 (2018): 1014-1022.
Ni, Ai, and Jianwen Cai. "A regularized variable selection procedure in additive hazards model with stratified case-cohort design." Lifetime Data Anal 24, no. 3 (2018): 443-463.
A Gould, Lawrence, Mark Ernest Boye, Michael J. Crowther, Joseph G. Ibrahim, George Quartey, Sandrine Micallef, and Frederic Y. Bois. "Responses to discussants of 'Joint modeling of survival and longitudinal non-survival data: current methods and issues. report of the DIA Bayesian joint modeling working group'." Stat Med 34, no. 14 (2015): 2202-3.
Chen, Xiaolin, and Jianwen Cai. "Reweighted estimators for additive hazard model with censoring indicators missing at random." Lifetime Data Anal 24, no. 2 (2018): 224-249.
Martinez, Kara, Arnab Maity, Robert H. Yolken, Patrick F. Sullivan, and Jung-Ying Tzeng. "Robust kernel association testing (RobKAT)." Genet Epidemiol 44, no. 3 (2020): 272-282.
Davidian, Marie. A robust method for estimating optimal treatment regimes., 2011.
Wang, Xiaofei, Junling Ma, and Stephen L. George. "ROC curve estimation under test-result-dependent sampling." Biostatistics 14, no. 1 (2013): 160-72.
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Yang, Yuchen, Ruth Huh, Houston W. Culpepper, Yuan Lin, Michael I. Love, and Yun Li. "SAFE-clustering: Single-cell Aggregated (from Ensemble) clustering for single-cell RNA-seq data." Bioinformatics 35, no. 8 (2019): 1269-1277.
Yang, Yuchen, Ruth Huh, Houston W. Culpepper, Yuan Lin, Michael I. Love, and Yun Li. "SAFE-clustering: Single-cell Aggregated (from Ensemble) clustering for single-cell RNA-seq data." Bioinformatics 35, no. 8 (2019): 1269-1277.
Levenson, M. Safety decision-making with multiple sources and different types of studies—recent examples from FDA Advisory Committees., 2011.
Chen, Liddy M., Joseph G. Ibrahim, and Haitao Chu. "Sample size and power determination in joint modeling of longitudinal and survival data." Stat Med 30, no. 18 (2011): 2295-309.
Chen, Liddy M., Joseph G. Ibrahim, and Haitao Chu. "Sample size and power determination in joint modeling of longitudinal and survival data." Stat Med 30, no. 18 (2011): 2295-309.
Li, Jianghao, and Sin-Ho Jung. "Sample size calculation for cluster randomization trials with a time-to-event endpoint." Stat Med 39, no. 25 (2020): 3608-3623.
Jung, Sin-Ho, and Shein-Chung Chow. "On sample size calculation for comparing survival curves under general hypothesis testing." J Biopharm Stat 22, no. 3 (2012): 485-95.
Jung, Sin-Ho, and Shein-Chung Chow. "On sample size calculation for comparing survival curves under general hypothesis testing." J Biopharm Stat 22, no. 3 (2012): 485-95.
Li, Zhiguo, Xiaofei Wang, Yuan Wu, and Kouros Owzar. "Sample size calculation for studies with grouped survival data." Stat Med 37, no. 27 (2018): 3904-3917.
Li, Zhiguo, Xiaofei Wang, Yuan Wu, and Kouros Owzar. "Sample size calculation for studies with grouped survival data." Stat Med 37, no. 27 (2018): 3904-3917.
Li, Zhiguo, Xiaofei Wang, Yuan Wu, and Kouros Owzar. "Sample size calculation for studies with grouped survival data." Stat Med 37, no. 27 (2018): 3904-3917.
Pang, Herbert, and Sin-Ho Jung. "Sample size considerations of prediction-validation methods in high-dimensional data for survival outcomes." Genet Epidemiol 37, no. 3 (2013): 276-82.
Chen, Liddy M., Joseph G. Ibrahim, and Haitao Chu. "Sample size determination in shared frailty models for multivariate time-to-event data." J Biopharm Stat 24, no. 4 (2014): 908-23.
Esserman, Denise, Yingqi Zhao, Yiyun Tang, and Jianwen Cai. "Sample size estimation in educational intervention trials with subgroup heterogeneity in only one arm." Stat Med 32, no. 12 (2013): 2140-54.
Hu, Wenrong, Jianwen Cai, and Donglin Zeng. "Sample size/power calculation for stratified case-cohort design." Stat Med 33, no. 23 (2014): 3973-85.
Hu, Wenrong, Jianwen Cai, and Donglin Zeng. "Sample size/power calculation for stratified case-cohort design." Stat Med 33, no. 23 (2014): 3973-85.
Wang, Rujin, Dan-Yu Lin, and Yuchao Jiang. "SCOPE: A Normalization and Copy-Number Estimation Method for Single-Cell DNA Sequencing." Cell Syst 10, no. 5 (2020): 445-452.e6.
Wang, Rujin, Dan-Yu Lin, and Yuchao Jiang. "SCOPE: A Normalization and Copy-Number Estimation Method for Single-Cell DNA Sequencing." Cell Syst 10, no. 5 (2020): 445-452.e6.
Yuan, Jiacheng, Herbert Pang, Tiejun Tong, Dong Xi, Wenzhao Guo, and Peter Mesenbrink. "Seamless Phase IIa/IIb and enhanced dose-finding adaptive design." J Biopharm Stat 26, no. 5 (2016): 912-23.
Pan, Yinghao, Jianwen Cai, Matthew P. Longnecker, and Haibo Zhou. "Secondary outcome analysis for data from an outcome-dependent sampling design." Stat Med 37, no. 15 (2018): 2321-2337.
Mao, Lu, and D Y. Lin. "Semiparametric regression for the weighted composite endpoint of recurrent and terminal events." Biostatistics 17, no. 2 (2016): 390-403.
Liu, Ying, Yuanjia Wang, and Donglin Zeng. "Sequential multiple assignment randomization trials with enrichment design." Biometrics 73, no. 2 (2017): 378-390.
Laber, Eric B., Daniel J. Lizotte, and Bradley Ferguson. "Set-valued dynamic treatment regimes for competing outcomes." Biometrics 70, no. 1 (2014): 53-61.
Skup, Martha, Hongtu Zhu, Yaping Wang, Kelly S. Giovanello, Ja-an Lin, Dinggang Shen, Feng Shi, Wei Gao, Weili Lin, Yong Fan et al. "Sex differences in grey matter atrophy patterns among AD and aMCI patients: results from ADNI." Neuroimage 56, no. 3 (2011): 890-906.
Hyun, Jung Won, Yimei Li, John H. Gilmore, Zhaohua Lu, Martin Styner, and Hongtu Zhu. "SGPP: spatial Gaussian predictive process models for neuroimaging data." Neuroimage 89 (2014): 70-80.
Chen, Yasheng, Songbai Ji, Xunlei Wu, Hongyu An, Hongtu Zhu, Dinggang Shen, and Weili Lin. "Simulation of brain mass effect with an arbitrary Lagrangian and Eulerian FEM." Med Image Comput Comput Assist Interv 13, no. Pt 2 (2010): 274-81.
Wisdom, Amy J., Yvonne M. Mowery, Cierra S. Hong, Jonathon E. Himes, Barzin Y. Nabet, Xiaodi Qin, Dadong Zhang, Lan Chen, Hélène Fradin, Rutulkumar Patel et al. "Single cell analysis reveals distinct immune landscapes in transplant and primary sarcomas that determine response or resistance to immunotherapy." Nat Commun 11, no. 1 (2020): 6410.
Wisdom, Amy J., Yvonne M. Mowery, Cierra S. Hong, Jonathon E. Himes, Barzin Y. Nabet, Xiaodi Qin, Dadong Zhang, Lan Chen, Hélène Fradin, Rutulkumar Patel et al. "Single cell analysis reveals distinct immune landscapes in transplant and primary sarcomas that determine response or resistance to immunotherapy." Nat Commun 11, no. 1 (2020): 6410.
Yang, Yanyan, Jinchuan Hu, Christopher P. Selby, Wentao Li, Askar Yimit, Yuchao Jiang, and Aziz Sancar. "Single-nucleotide resolution analysis of nucleotide excision repair of ribosomal DNA in humans and mice." J Biol Chem 294, no. 1 (2019): 210-217.
Laber, Eric B.. Sizing a trial for estimation of an optimal treatment regime., 2014.
Thall, PF. SMART Design, Conduct, and Analysis in Oncology., 2014.
Mitha, Faheem, Herodotos Herodotou, Nedyalko Borisov, Chen Jiang, Josh Yoder, and Kouros Owzar. "SNPpy--database management for SNP data from genome wide association studies." PLoS One 6, no. 10 (2011): e24982.
Huque, Md Hamidul, Howard D. Bondell, Raymond J. Carroll, and Louise M. Ryan. "Spatial regression with covariate measurement error: A semiparametric approach." Biometrics 72, no. 3 (2016): 678-86.

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