Publications

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Journal Article
Shin, Sunyoung, Jason Fine, and Yufeng Liu. "Adaptive Estimation with Partially Overlapping Models." Stat Sin 26, no. 1 (2016): 235-253.
Fu, Sheng, Sanguo Zhang, and Yufeng Liu. "Adaptively weighted large-margin angle-based classifiers." J Multivar Anal 166 (2018): 282-299.
Burbank, Allison J., Krista Todoric, Pamela Steele, Jonathan Rosen, Haibo Zhou, Marcia Frye, Ceila E. Loughlin, Sally Ivins, Katherine Mills, Lauren Dembnicki Massey et al. "Age and African-American race impact the validity and reliability of the asthma control test in persistent asthmatics." Respir Res 19, no. 1 (2018): 152.
Verbeke, Geert, Steffen Fieuws, Geert Molenberghs, and Marie Davidian. "The analysis of multivariate longitudinal data: a review." Stat Methods Med Res 23, no. 1 (2014): 42-59.
Tao, Ran, Donglin Zeng, Nora Franceschini, Kari E. North, Eric Boerwinkle, and Dan-Yu Lin. "Analysis of Sequence Data Under Multivariate Trait-Dependent Sampling." J Am Stat Assoc 110, no. 510 (2015): 560-572.
Cao, Hongyuan, Mathew M. Churpek, Donglin Zeng, and Jason P. Fine. "Analysis of the Proportional Hazards Model with Sparse Longitudinal Covariates." J Am Stat Assoc 110, no. 511 (2015): 1187-1196.
Roe, Matthew T., Derek D. Cyr, Debra Eckart, Phillip J. Schulte, Michael A. Morse, Kimberly L. Blackwell, Neal E. Ready, Yousuf S Zafar, Anne W. Beaven, John H. Strickler et al. "Ascertainment, classification, and impact of neoplasm detection during prolonged treatment with dual antiplatelet therapy with prasugrel vs. clopidogrel following acute coronary syndrome." Eur Heart J 37, no. 4 (2016): 412-22.
Neupane, Suman, Karolina Fučíková, Louise A. Lewis, Lynn Kuo, Ming-Hui Chen, and Paul O. Lewis. "Assessing Combinability of Phylogenomic Data Using Bayes Factors." Syst Biol 68, no. 5 (2019): 744-754.
Li, Jialiang, and Jason P. Fine. "Assessing the dependence of sensitivity and specificity on prevalence in meta-analysis." Biostatistics 12, no. 4 (2011): 710-22.
Wu, Jing, Joseph G. Ibrahim, Ming-Hui Chen, Elizabeth D. Schifano, and Jeffrey D. Fisher. "Bayesian Modeling and Inference for Nonignorably Missing Longitudinal Binary Response Data with Applications to HIV Prevention Trials." Stat Sin 28 (2018): 1929-1963.
Lin, Jiaxing, Jeremy Gresham, Tongrong Wang, So Young Kim, James Alvarez, Jeffrey S. Damrauer, Scott Floyd, Joshua Granek, Andrew Allen, Cliburn Chan et al. "bcSeq: an R package for fast sequence mapping in high-throughput shRNA and CRISPR screens." Bioinformatics 34, no. 20 (2018): 3581-3583.
Fan, Ailin, Rui Song, and Wenbin Lu. "Change-Plane Analysis for Subgroup Detection and Sample Size Calculation." J Am Stat Assoc 112, no. 518 (2017): 769-778.
Mentz, Robert J., Phillip J. Schulte, Jerome L. Fleg, Mona Fiuzat, William E. Kraus, Ileana L. Piña, Steven J. Keteyian, Dalane W. Kitzman, David J. Whellan, Stephen J. Ellis et al. "Clinical characteristics, response to exercise training, and outcomes in patients with heart failure and chronic obstructive pulmonary disease: findings from Heart Failure and A Controlled Trial Investigating Outcomes of Exercise TraiNing (HF-ACTION)." Am Heart J 165, no. 2 (2013): 193-9.
Mentz, Robert J., Phillip J. Schulte, Jerome L. Fleg, Mona Fiuzat, William E. Kraus, Ileana L. Piña, Steven J. Keteyian, Dalane W. Kitzman, David J. Whellan, Stephen J. Ellis et al. "Clinical characteristics, response to exercise training, and outcomes in patients with heart failure and chronic obstructive pulmonary disease: findings from Heart Failure and A Controlled Trial Investigating Outcomes of Exercise TraiNing (HF-ACTION)." Am Heart J 165, no. 2 (2013): 193-9.
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.
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.
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.
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.
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.
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.
Lewis, Paul O., Ming-Hui Chen, Lynn Kuo, Louise A. Lewis, Karolina Fučíková, Suman Neupane, Yu-Bo Wang, and Daoyuan Shi. "Estimating Bayesian Phylogenetic Information Content." Syst Biol 65, no. 6 (2016): 1009-1023.
Chen, Jingxiang, Haoda Fu, Xuanyao He, Michael R. Kosorok, and Yufeng Liu. "Estimating individualized treatment rules for ordinal treatments." Biometrics 74, no. 3 (2018): 924-933.
Joshi, Neha, Jason Fine, Rong Chu, and Anastasia Ivanova. "Estimating the subgroup and testing for treatment effect in a post-hoc analysis of a clinical trial with a biomarker." J Biopharm Stat 29, no. 4 (2019): 685-695.
Cao, Guanqun, David Todem, Lijian Yang, and Jason P. Fine. "Evaluating Statistical Hypotheses Using Weakly-Identifiable Estimating Functions." Scand Stat Theory Appl 40, no. 2 (2013): 256-273.
Li, Tengfei, Fengchang Xie, Xiangnan Feng, Joseph G. Ibrahim, and Hongtu Zhu. "Functional Linear Regression Models for Nonignorable Missing Scalar Responses." Stat Sin 28, no. 4 (2018): 1867-1886.
Wojcik, Genevieve L., Mariaelisa Graff, Katherine K. Nishimura, Ran Tao, Jeffrey Haessler, Christopher R. Gignoux, Heather M. Highland, Yesha M. Patel, Elena P. Sorokin, Christy L. Avery et al. "Genetic analyses of diverse populations improves discovery for complex traits." Nature 570, no. 7762 (2019): 514-518.
Wojcik, Genevieve L., Mariaelisa Graff, Katherine K. Nishimura, Ran Tao, Jeffrey Haessler, Christopher R. Gignoux, Heather M. Highland, Yesha M. Patel, Elena P. Sorokin, Christy L. Avery et al. "Genetic analyses of diverse populations improves discovery for complex traits." Nature 570, no. 7762 (2019): 514-518.
Lin, Dan-Yu, Ran Tao, William D. Kalsbeek, Donglin Zeng, Franklyn Gonzalez, Lindsay Fernández-Rhodes, Mariaelisa Graff, Gary G. Koch, Kari E. North, and Gerardo Heiss. "Genetic association analysis under complex survey sampling: the Hispanic Community Health Study/Study of Latinos." Am J Hum Genet 95, no. 6 (2014): 675-88.
Innocenti, Federico, Chen Jiang, Alexander B. Sibley, Amy S. Etheridge, Ace J. Hatch, Stefanie Denning, Donna Niedzwiecki, Ivo D. Shterev, Jiaxing Lin, Yoichi Furukawa et al. "Genetic variation determines VEGF-A plasma levels in cancer patients." Sci Rep 8, no. 1 (2018): 16332.
R Baldwin, Michael, Kouros Owzar, Hitoshi Zembutsu, Aparna Chhibber, Michiaki Kubo, Chen Jiang, Dorothy Watson, Rachel J. Eclov, Joel Mefford, Howard L. McLeod et al. "A genome-wide association study identifies novel loci for paclitaxel-induced sensory peripheral neuropathy in CALGB 40101." Clin Cancer Res 18, no. 18 (2012): 5099-109.
Chua, Katherina C., Chenling Xiong, Carol Ho, Taisei Mushiroda, Chen Jiang, Flora Mulkey, Dongbing Lai, Bryan P. Schneider, Sara R. Rashkin, John S. Witte et al. "Genomewide Meta-Analysis Validates a Role for S1PR1 in Microtubule Targeting Agent-Induced Sensory Peripheral Neuropathy." Clin Pharmacol Ther 108, no. 3 (2020): 625-634.
Todem, D, J Fine, and L Peng. "A global sensitivity test for evaluating statistical hypotheses with nonidentifiable models." Biometrics 66, no. 2 (2010): 558-66.
Shi, Chengchun, Alin Fan, Rui Song, and Wenbin Lu. "HIGH-DIMENSIONAL A-LEARNING FOR OPTIMAL DYNAMIC TREATMENT REGIMES." Ann Stat 46, no. 3 (2018): 925-957.
Wong, Kin Yau, Cheng Fan, Maki Tanioka, Joel S. Parker, Andrew B. Nobel, Donglin Zeng, Dan-Yu Lin, and Charles M. Perou. "I-Boost: an integrative boosting approach for predicting survival time with multiple genomics platforms." Genome Biol 20, no. 1 (2019): 52.
West, Rachel Marceau, Wenbin Lu, Daniel M. Rotroff, Melaine A. Kuenemann, Sheng-Mao Chang, Michael C. Wu, Michael J. Wagner, John B. Buse, Alison A. Motsinger-Reif, Denis Fourches et al. "Identifying individual risk rare variants using protein structure guided local tests (POINT)." PLoS Comput Biol 15, no. 2 (2019): e1006722.
Hibbard, Jonathan C., Jonathan S. Friedstat, Sonia M. Thomas, Renee E. Edkins, Scott C Hultman, and Michael R. Kosorok. "LIBERTI: A SMART study in plastic surgery." Clin Trials 15, no. 3 (2018): 286-293.
Shi, Chengchun, Rui Song, Wenbin Lu, and Bo Fu. "Maximin Projection Learning for Optimal Treatment Decision with Heterogeneous Individualized Treatment Effects." J R Stat Soc Series B Stat Methodol 80, no. 4 (2018): 681-702.
Li, Jialiang, Binyan Jiang, and Jason P. Fine. "Multicategory reclassification statistics for assessing improvements in diagnostic accuracy." Biostatistics 14, no. 2 (2013): 382-94.
Isogai, Yoh, Zheng Wu, Michael I. Love, Michael Ho- Young Ahn, Dhananjay Bambah-Mukku, Vivian Hua, Karolina Farrell, and Catherine Dulac. "Multisensory Logic of Infant-Directed Aggression by Males." Cell 175, no. 7 (2018): 1827-1841.e17.
Foster, Nathan R., Lindsay A. Renfro, Steven E. Schild, Mary W. Redman, Xiaofei F. Wang, Suzanne E. Dahlberg, Keyue Ding, Penelope A. Bradbury, Suresh S. Ramalingam, David R. Gandara et al. "Multitrial Evaluation of Progression-Free Survival as a Surrogate End Point for Overall Survival in First-Line Extensive-Stage Small-Cell Lung Cancer." J Thorac Oncol 10, no. 7 (2015): 1099-106.
Wu, Jing, Ming-Hui Chen, Elizabeth D. Schifano, Joseph G. Ibrahim, and Jeffrey D. Fisher. "A new Bayesian joint model for longitudinal count data with many zeros, intermittent missingness, and dropout with applications to HIV prevention trials." Stat Med 38, no. 30 (2019): 5565-5586.
Lin, Feng-Chang, Jianwen Cai, Jason P. Fine, and Huichuan J. Lai. "Nonparametric estimation of the mean function for recurrent event data with missing event category." Biometrika 100, no. 3 (2013).
Chung, Yunro, Anastasia Ivanova, Michael G. Hudgens, and Jason P. Fine. "Partial likelihood estimation of isotonic proportional hazards models." Biometrika 105, no. 1 (2018): 133-148.
Kong, Dehan, Kelly S. Giovanello, Yalin Wang, Weili Lin, Eunjee Lee, Yong Fan, Murali P Doraiswamy, and Hongtu Zhu. "Predicting Alzheimer's Disease Using Combined Imaging-Whole Genome SNP Data." J Alzheimers Dis 46, no. 3 (2015): 695-702.
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.
Harbeck, Nadia, Oleg Lipatov, Mona Frolova, Dmitry Udovitsa, Eldar Topuzov, Doina Elena Ganea-Motan, Roumen Nakov, Pritibha Singh, Anita Rudy, and Kimberly Blackwell. "Randomized, double-blind study comparing proposed biosimilar LA-EP2006 with reference pegfilgrastim in breast cancer." Future Oncol 12, no. 11 (2016): 1359-67.
Xue, Xiaoqiang, Matthew C. Foster, and Anastasia Ivanova. "Rapid enrollment design for finding the optimal dose in immunotherapy trials with ordered groups." J Biopharm Stat 29, no. 4 (2019): 625-634.
Ivanova, Anastasia, Yunfei Wang, and Matthew C. Foster. "The rapid enrollment design for Phase I clinical trials." Stat Med 35, no. 15 (2016): 2516-24.
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.
Cao, Hongyuan, Donglin Zeng, and Jason P. Fine. "Regression analysis of sparse asynchronous longitudinal data." J R Stat Soc Series B Stat Methodol 77, no. 4 (2015): 755-776.
Li, Jialiang, Andrew Xiaohua Zhou, and Jason P. Fine. "A regression approach to ROC surface, with applications to Alzheimer's disease." Sci China Math 55, no. 8 (2012): 1583-1595.
Zhang, Chong, Minh Pham, Sheng Fu, and Yufeng Liu. "Robust Multicategory Support Vector Machines using Difference Convex Algorithm." Math Program 169, no. 1 (2018): 277-305.
Todem, David, Kyungmann Kim, Jason Fine, and Limin Peng. "Semiparametric regression models and sensitivity analysis of longitudinal data with nonrandom dropouts." Stat Neerl 64, no. 2 (2010): 133-156.
Fan, Ailin, Wenbin Lu, and Rui Song. "Sequential advantage selection for optimal treatment regime." Ann Appl Stat 10, no. 1 (2016): 32-53.
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.
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.
Samsky, Marc D., Chetan B. Patel, Ashleigh Owen, Phillip J. Schulte, Jacob Jentzer, Paul B. Rosenberg, Michael G Felker, Carmelo A. Milano, Adrian F. Hernandez, and Joseph G. Rogers. "Ten-year experience with extended criteria cardiac transplantation." Circ Heart Fail 6, no. 6 (2013): 1230-8.
Schild, Steven E., Wen Fan, Thomas E. Stinchcombe, Everett E. Vokes, Suresh S. Ramalingam, Jeffrey D. Bradley, Karen Kelly, Herbert H. Pang, and Xiaofei Wang. "Toxicity Related to Radiotherapy Dose and Targeting Strategy: A Pooled Analysis of Cooperative Group Trials of Combined Modality Therapy for Locally Advanced Non-Small Cell Lung Cancer." J Thorac Oncol 14, no. 2 (2019): 298-303.
Freedman, Rachel A., Rebecca S. Gelman, Jeffrey S. Wefel, Michelle E. Melisko, Kenneth R. Hess, Roisin M. Connolly, Catherine H. Van Poznak, Polly A. Niravath, Shannon L. Puhalla, Nuhad Ibrahim et al. "Translational Breast Cancer Research Consortium (TBCRC) 022: A Phase II Trial of Neratinib for Patients With Human Epidermal Growth Factor Receptor 2-Positive Breast Cancer and Brain Metastases." J Clin Oncol 34, no. 9 (2016): 945-52.
Freedman, Rachel A., Rebecca S. Gelman, Jeffrey S. Wefel, Michelle E. Melisko, Kenneth R. Hess, Roisin M. Connolly, Catherine H. Van Poznak, Polly A. Niravath, Shannon L. Puhalla, Nuhad Ibrahim et al. "Translational Breast Cancer Research Consortium (TBCRC) 022: A Phase II Trial of Neratinib for Patients With Human Epidermal Growth Factor Receptor 2-Positive Breast Cancer and Brain Metastases." J Clin Oncol 34, no. 9 (2016): 945-52.
Caron, Whitney P., John C. Lay, Alan M. Fong, Ninh M. La-Beck, Parag Kumar, Suzanne E. Newman, Haibo Zhou, Jane H. Monaco, Daniel L. Clarke-Pearson, Wendy R. Brewster et al. "Translational studies of phenotypic probes for the mononuclear phagocyte system and liposomal pharmacology." J Pharmacol Exp Ther 347, no. 3 (2013): 599-606.
Verde, Audrey R., Francois Budin, Jean-Baptiste Berger, Aditya Gupta, Mahshid Farzinfar, Adrien Kaiser, Mihye Ahn, Hans Johnson, Joy Matsui, Heather C. Hazlett et al. "UNC-Utah NA-MIC framework for DTI fiber tract analysis." Front Neuroinform 7 (2014): 51.
Wang, Xiaofei, Xiaoyi Wang, Lydia Hodgson, Stephen L. George, Daniel J. Sargent, Nate R. Foster, Apar Kishor Ganti, Thomas E. Stinchcombe, Jeffrey Crawford, Robert Kratzke et al. "Validation of Progression-Free Survival as a Surrogate Endpoint for Overall Survival in Malignant Mesothelioma: Analysis of Cancer and Leukemia Group B and North Central Cancer Treatment Group (Alliance) Trials." Oncologist 22, no. 2 (2017): 189-198.
Li, Jialiang, and Jason P. Fine. "Weighted Area Under the Receiver Operating Characteristic Curve and Its Application to Gene Selection." J R Stat Soc Ser C Appl Stat 59, no. 4 (2010): 673-692.
Li, Jialiang, and Jason P. Fine. "Weighted area under the receiver operating characteristic curve and its application to gene selection." Journal of the Royal Statistical Society: Series C (Applied Statistics) (2010).
Bellach, Anna, Michael R. Kosorok, Ludger Rüschendorf, and Jason P. Fine. "Weighted NPMLE for the Subdistribution of a Competing Risk." J Am Stat Assoc 114, no. 525 (2019): 259-270.
Presentation
Fine, Jason P.. An overview of competing risks data, with applications in clinical trials., 2011.
Software
Cao, Hongyuan, Donglin Zeng, Jason P. Fine, and Shannon T. Holloway. AsynchLong: Regression analysis of sparse asynchronous longitudinal data (R).. 2.0 ed., 2016.
Tao, Ran, Donglin Zeng, Nora Franceschini, Kari E. North, Eric Boerwinkle, and Dan-Yu Lin. MultiTDS: Analysis of Sequence Data Under Multivariate Trait-Dependent Sampling (C++)., 2015.
Fan, Aiilin, and Shannon T. Holloway. subdetect: Detect subgroup with an enhanced treatment effect (R).. 1.1 ed., 2016.
Lin, Dan-Yu, R Tao, W Kalsbeek, Donglin Zeng, Franklyn Gonzalez, Lindsay Fernández-Rhodes, Mariaelisa Graff, Gary G. Koch, Kari E. North, and Gerardo Heiss. SUGEN: Genetic Association Analysis Under Complex Survey Sampling (C++)., 2014.
Cao, Hongyuan, Mathew M. Churpek, Donglin Zeng, Jason P. Fine, and Shannon T. Holloway. SurvLong: Analysis of proportional hazards model with sparse longitudinal covariates (R).. 1.0 ed., 2015.