Publications

Google Scholar

* Students or postdocs + (Co-)corresponding author

Preprint

• Conformal Selection for Efficient and Accurate Compound Screening in Drug Discovery
  Bai, T.*, Tang, P.*, Xu, Y., Svetnik, V., Khalili, A., Yu, X.+, Yang, AY.+

• QComp: A QSAR-based Data Completion Framework for Drug Discovery
  Yang, B., Chung, Y., Yang, AY., Yuan, B., Yu, X.

• A High-dimensional Model for Identifying Regional Methylation QTLs
  Zhao, K. *, Yang, AY., Oualkacha, K., Zeng, Y. *, Klein, K., Hudson, M., Colmegna, I., Bernatsky, S., Greenwood, C.

• An Efficient Meta-analytic Estimator for Privacy-preserving Cox Regression in Multi-site Studies
  Juwara, L. *, Yang, AY., Balde, I., Velly, AM., Saha-Chaudhuri, P.

• Sparse Polygenic Risk Score Inference with the Spike-and-slab LASSO
  Song, J.*, Zabad, S., Yang, AY., Li, Y.

2025

• A Novel and Efficient Machine Learning Mendelian Randomization Estimator Applied to Predict the Safety and Efficacy of Sclerostin Inhibition
  Legault, MA., Hartford, J., Arsenault BJ., Yang, AY., Pineau, J.
  American Journal of Human Genetics

• A Graph Decomposition-based Approach for the Graph-fused Lasso
  [pdf]
  Yu, F., Yang, AY., Zhang, T.
  Journal of Statistical Planning and Inference

• Estimation and Group-feature Selection in Sparse Mixture-of-experts with Diverging Number of Parameters
  [pdf]
  Khalili, A., Yang, AY., Da, X.*
  Journal of Statistical Planning and Inference

• Red Teaming ChatGPT in Medicine to Yield Real World Insights on Model Behavior
  [pdf]
  Daneshjou, R. et al. (contributing author)
  npj Digital Medicine

2024

• MixEHR-SurG: A Joint Proportional Hazard and Guided Topic Model for Inferring Mortality-associated Topics from Electronic Health Records
  [pdf] [supplementary materials]
  Li, Y.*, Yang, AY.+, Marelli+, A., Li, Y.+
  Journal of Biomedical Informatics

• Structured Learning in Time-dependent Cox Models
  [pdf] [supplementary materials] [code]
  Wang, G.*+, Lian, Y.*, Yang, AY.+, Platt, RW., Wang, R., Perreault, S., Dorais, M., Schnitzer, ME.
  Statistics in Medicine

• Group Penalized Expectile Regression
  [pdf]
  Ouhourane, M.*, Oualkacha, K., Yang, AY.
  Statistical Methods and Applications

• Machine Learning Informed Diagnosis for Congenital Heart Disease in Large Claims Data Source
  [pdf]
  Marelli, AJ., Li, C.*, Liu, A., Nguyen, H., Moroz, H., Brophy, JM., Guo, L., Buckeridge, DL., Tang, J., Yang, AY., Li, Y.
  JACC: Advances

• Interpolation of Positive Matrices by Quantum-inspired Optimal Control
  [pdf]
  Jiang, C., Pan, Y., Yang, Y., Dong, D.
  IET Control Theory & Applications

2023

• Variable Selection in High Dimensions for Discrete-outcome Individualized Treatment Rules: A Case Study in Reducing Severity of Depression Symptoms
  [pdf] [supplementary materials]
  Moodie, EEM., Bian, Z., Coulombe, J., Lian, Y.*, Yang, AY., Shortreed, S.
  Biostatistics

• A Tweedie Compound Poisson Model in Reproducing Kernel Hilbert Space
  [pdf] [supplementary materials] [software] [code]
  Lian, Y.*, Yang, AY., Wang, B., Shi, P., Platt, R.
  Technometrics

• Reader Reaction to “Outcome-adaptive lasso: variable selection for causal inference” by Shortreed and Ertefaie (2017)
  [pdf] [supplementary materials] [code]
  Balde, I.*, Yang, AY., Lefebvre, G.
  Biometrics

• A Sparse Additive Model for High-Dimensional Interactions with An Exposure Variable
  [pdf] [supplementary materials] [software]
  Bhatnagar, SR.*, Lu, T., Lovato, A., Olds, DL., Kobor, MS., Meaney, MJ., O'Donnell, K., Yang, AY., Greenwood, CMT.
  Computational Statistics and Data Analysis

• Privacy-preserving Analysis of Time-to-event Data under Nested Case-control Sampling
  [pdf] [supplementary materials]
  Juwara, L.*, Yang, AY., Velly, A., Saha-Chaudhuri, P.
  Statistical Methods in Medical Research

2022

• A Consolidated Cross-Validation Algorithm for Support Vector Machines via Data Reduction
  [pdf] [supplementary materials]
  Wang, B., Yang, AY.
  Advances in Neural Information Processing Systems (NeurIPS)

• Doubly Robust Adaptive LASSO for Effect Modifier Discovery
  [pdf]
  Bahamyirou, A., Schnitzer, ME., Kennedy, EH., Blais, L., Yang, Y.
  International Journal of Biostatistics

• Performance Assessment of High-dimensional Variable Identification
  [pdf] [supplementary materials] [software]
  Yu, Y., Yang, Y., Yang, Y.
  Statistica Sinica

• Tweedie Gradient Boosting for Extremely Unbalanced Zero-inflated Data
  [pdf]
  Zhou, H.*, Qian, W., Yang, Y.+
  Communications in Statistics - Simulation and Computation

• Automatic Depth Optimization for a Quantum Approximate Optimization Algorithm
  [pdf] [supplementary materials]
  Pan, Y., Tong, Y., Yang, Y.
  Physical Review A

• Dissecting the Impact of Molecular T-cell HLA Mismatches in Kidney Transplant Failure: a Retrospective Cohort Study
  Lemieux, W., Fleischer, D.*, Yang, AY., Niemann, M., Oualkacha, K., Klement, W., Richard, L., Polychronakos, C., Liwski, R., Claas, F., Gebel, H., Keown, P., Lewin, A., Sapir-Pichhadze, R.
  [pdf] [supplementary materials]
  Frontiers in Immunology

2021

• Group Penalized Quantile Regression
  [pdf] [supplementary materials]
  Ouhourane, M.*, Yang, Y., Benedet, A., Oualkacha, K.
  Statistical Methods and Applications

• Recurrent Disease Progression Networks for Modelling Risk Trajectory of Heart Failure
  [pdf]
  Lu, X., Liu, A., Fuh, S., Lian, Y.*, Guo, L., Yang, Y., Marelli, A., Li, Y.
  PLOS ONE

• On Path to Informing Hierarchy of Eplet Mismatches as Determinants of Kidney Transplant Loss
  [pdf]
  Mohammad, H., Oualkacha, K., Zhang, W., Klement, W., Bourdiec, A., Lamsatfi, J., Yang, Y., Foster, B., Keown, P., Gebel, H., Claas, F., Sapir-Pichhadze, R.
  Kidney International Reports

2020

• A Unified Approach to Sparse Tweedie Modeling of Multi-source Insurance Claim Data
  [pdf] [supplementary materials] [software]
  Fontaine, S.*, Yang, Y.+, Qian, W., Gu, Y., Fan, B.
  Technometrics

• Simultaneous SNP Selection and Adjustment for Population Structure in High Dimensional Prediction Models
  [pdf] [software]
  Bhatnagar, SR.*, Yang, Y., Lu, T., Schurr, E., Loredo-Osti, JC, Forest, M., Oualkacha, K., Greenwood, CMT.
  PLOS Genetics

• Efficient Estimation in Expectile Regression Using Envelope Models
  [pdf] [supplementary materials]
  Chen, T., Su, Z., Yang, Y., Ding, S.
  Electronic Journal of Statistics

• Machine Learning to Automate Clinician Designed Empirical Manual for Congenital Heart Disease Identification in Large Claims Database
  [abstract]
  Marelli, A., Li, C.*, Liu, A., Nguyen, H., Brophy, J., Guo, L., Buckeridge, D., Tang, J., Pineau, J., Yang, Y., Li, Y.
  Machine Learning for Healthcare (MLHC)

2019

• Multiclass Sparse Discriminant Analysis
  [pdf] [supplementary materials] [software]
  Mai, Q., Yang, Y., Zou, H.
  Statistica Sinica

2018

• Sparsity Oriented Importance Learning for High-dimensional Linear Regression
  [pdf] [supplementary materials] [software]
  Ye, C., Yang, Y.+, Yang, Y.
  Journal of the American Statistical Association

• Robust PCA by Manifold Optimization
  [pdf]
  Zhang, T., Yang, Y.
  Journal of Machine Learning Research

• Insurance Premium Prediction via Gradient Tree-Boosted Tweedie Compound Poisson Models
  [pdf] [supplementary materials] [software]
  Yang, Y., Qian, W., Zou, H.
  Journal of Business & Economic Statistics

• Flexible Expectile Regression in Reproducing Kernel Hilbert Space
  [pdf] [supplementary materials] [software]
  Yang, Y., Zhang, T., Zou. H.
  Technometrics

• An Analytic Approach for Interpretable Predictive Models in High Dimensional Data in the Presence of Interactions with Exposures
  [pdf] [supplementary materials] [software]
  Bhatnagar, SR.*, Yang, Y., Khundrakpam, B., Evans, AC., Blanchette, M., Bouchard, L., Greenwood, CMT.
  Genetic Epidemiology

2016

• Sparse Envelope Model: Efficient Estimation and Response Variable Selection in Multivariate Linear Regression
  [pdf] [supplementary materials]
  Su, Z., Zhu, G., Chen, X., Yang, Y.
  Biometrika

• Tweedie's Compound Poisson Model with Grouped Elastic Net
  [pdf] [supplementary materials] [software]
  Qian, W., Yang, Y., Zou, H.
  Journal of Computational and Graphical Statistics

2015

• A Fast Unified Algorithm for Solving Group-Lasso Penalized Learning Problems
  [pdf] [software]
  Yang, Y., Zou, H.
  Statistics and Computing

• A MATLAB Toolbox for Computing Envelope Estimators in Multivariate Linear Regression
  [pdf] [software]
  Cook, D., Su, Z., Yang, Y.
  Journal of Statistical Software

• Nonparametric Multiple Expectile Regression via ER-Boost
  [pdf] [software]
  Yang, Y., Zou, H.
  Journal of Statistical Computation and Simulation

2014

• A Coordinate Majorization Descent Algorithm for l1 Penalized Learning
  [pdf]
  Yang, Y., Zou, H.
  Journal of Statistical Computation and Simulation

2013

• An Efficient Algorithm for Computing The HHSVM and Its Generalizations
  [pdf] [software]
  Yang, Y., Zou, H.
  Journal of Computational and Graphical Statistics

• A Cocktail Algorithm for Solving The Elastic Net Penalized Cox’s Regression in High Dimensions
  [pdf] [software]
  Yang, Y., Zou, H.
  Statistics and Its Interface