Xiaoning Qian - RankMe

263 papers A* 26A 14B 3Misc 16Journal 153Unranked 48

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	Causal Learning Should Embrace the Wisdom of the Crowd. CoRR Ryan Feng Lin, Yuantao Wei, Huiling Liao, Xiaoning Qian, Shuai Huang
2026	J	`jnl`	Evaluating GFlowNet from partial episodes for stable and flexible policy-based training. CoRR Puhua Niu, Shili Wu, Xiaoning Qian
2025	—	`conf`	A Dual Graph Encoder Approach to Structure-Based TCR-pMHC Binding Prediction. BCB A. N. M. Nafiz Abeer, Xiaoning Qian, Byung-Jun Yoon
2025	J	`jnl`	A Materials Foundation Model via Hybrid Invariant-Equivariant Architectures. CoRR Keqiang Yan, Montgomery Bohde, Andrii Kryvenko, Ziyu Xiang, Kaiji Zhao, Siya Zhu, Saagar Kolachina, Doguhan Saritürk, Jianwen Xie, Raymundo Arróyave, Xiaoning Qian, Xiaofeng Qian, Shuiwang Ji
2025	J	`jnl`	Artificial Intelligence for Science in Quantum, Atomistic, and Continuum Systems. Found. Trends Mach. Learn. Xuan Zhang, Limei Wang, Jacob Helwig, Youzhi Luo, Cong Fu, Yaochen Xie, Meng Liu, Yuchao Lin, Zhao Xu, Keqiang Yan, Keir Adams, Maurice Weiler, Xiner Li, Tianfan Fu, Yucheng Wang, Alex Strasser, Haiyang Yu, Yuqing Xie, Xiang Fu, Shenglong Xu, Yi Liu, Yuanqi Du, Alexandra Saxton, Hongyi Ling, Hannah Lawrence, Hannes Stärk, Shurui Gui, Carl Edwards, Nicholas Gao, Adriana Ladera, Tailin Wu, Elyssa F. Hofgard, Aria Mansouri Tehrani, Rui Wang, Ameya Daigavane, Montgomery Bohde, Jerry Kurtin, Qian Huang, Tuong Phung, Minkai Xu, Chaitanya K. Joshi, Simon V. Mathis, Kamyar Azizzadenesheli, Ada Fang, Alán Aspuru-Guzik, Erik J. Bekkers, Michael M. Bronstein, Marinka Zitnik, Anima Anandkumar, Stefano Ermon, Pietro Liò, Rose Yu, Stephan Günnemann, Jure Leskovec, Heng Ji, Jimeng Sun, Regina Barzilay, Tommi S. Jaakkola, Connor W. Coley, Xiaoning Qian, Xiaofeng Qian, Tess E. Smidt, Shuiwang Ji
2025	J	`jnl`	C-LoRA: Contextual Low-Rank Adaptation for Uncertainty Estimation in Large Language Models. CoRR Amir Hossein Rahmati, Sanket R. Jantre, Weifeng Zhang, Yucheng Wang, Byung-Jun Yoon, Nathan M. Urban, Xiaoning Qian
2025	—	`ed.`	Companion Proceedings of the 16th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, BCB Companion 2025, Element Philadelphia Downtown, Philadelphia, PA, USA, October 11-15, 2025 BCB Companion Xinghua Mindy Shi, Xiaoning Qian
2025	J	`jnl`	Cost-effective Reduced-Order Modeling via Bayesian Active Learning. CoRR Amir Hossein Rahmati, Nathan M. Urban, Byung-Jun Yoon, Xiaoning Qian
2025	J	`jnl`	Data-Augmented Few-Shot Neural Stencil Emulation for System Identification of Computer Models. CoRR Sanket R. Jantre, Deepak Akhare, Xiaoning Qian, Nathan M. Urban
2025	J	`jnl`	InvarGC: Invariant Granger Causality for Heterogeneous Interventional Time Series under Latent Confounding. CoRR Ziyi Zhang, Shaogang Ren, Xiaoning Qian, Nick Duffield
2025	J	`jnl`	Invariant Tokenization of Crystalline Materials for Language Model Enabled Generation. CoRR Keqiang Yan, Xiner Li, Hongyi Ling, Kenna Ashen, Carl Edwards, Raymundo Arróyave, Marinka Zitnik, Heng Ji, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2025	A*	`conf`	Pareto Prompt Optimization. ICLR Guang Zhao, Byung-Jun Yoon, Gilchan Park, Shantenu Jha, Shinjae Yoo, Xiaoning Qian
2025	—	`ed.`	Proceedings of the 16th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB 2025, Element Philadelphia Downtown, Philadelphia, PA, USA, October 12-15, 2025 BCB Xinghua Mindy Shi, Xiaoning Qian, Minghan Chen, Jacob M. Luber, Gail L. Rosen, Yunan Luo
2025	J	`jnl`	Rare Event Detection by Acquisition-Guided Sampling. IEEE Trans Autom. Sci. Eng. Huiling Liao, Xiaoning Qian, Jianhua Z. Huang, Peng Li
2025	—	`conf`	Scale-Invariant Implicit Neural Representations For Object Counting. CVPR Workshops Siyuan Xu, Yucheng Wang, Xihaier Luo, Byung-Jun Yoon, Xiaoning Qian
2025	J	`jnl`	Toward Greater Autonomy in Materials Discovery Agents: Unifying Planning, Physics, and Scientists. CoRR Lianhao Zhou, Hongyi Ling, Keqiang Yan, Kaiji Zhao, Xiaoning Qian, Raymundo Arróyave, Xiaofeng Qian, Shuiwang Ji
2025	J	`jnl`	Uncertainty-Aware Adaptation of Large Language Models for Protein-Protein Interaction Analysis. CoRR Sanket R. Jantre, Tianle Wang, Gilchan Park, Kriti Chopra, Nicholas Jeon, Xiaoning Qian, Nathan M. Urban, Byung-Jun Yoon
2024	A*	`conf`	A Space Group Symmetry Informed Network for O(3) Equivariant Crystal Tensor Prediction. ICML Keqiang Yan, Alexandra Saxton, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2024	J	`jnl`	A Space Group Symmetry Informed Network for O(3) Equivariant Crystal Tensor Prediction. CoRR Keqiang Yan, Alexandra Saxton, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2024	J	`jnl`	Bayesian Proper Orthogonal Decomposition for Learnable Reduced-Order Models With Uncertainty Quantification. IEEE Trans. Artif. Intell. Shahin Boluki, Siamak Zamani Dadaneh, Edward R. Dougherty, Xiaoning Qian
2024	—	`conf`	Calibration of Compartmental Epidemiological Models via Graybox Bayesian Optimization. BHI Puhua Niu, Byung-Jun Yoon, Xiaoning Qian
2024	J	`jnl`	Causal Bayesian Optimization via Exogenous Distribution Learning. CoRR Shaogang Ren, Xiaoning Qian
2024	A*	`conf`	Complete and Efficient Graph Transformers for Crystal Material Property Prediction. ICLR Keqiang Yan, Cong Fu, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2024	J	`jnl`	Complete and Efficient Graph Transformers for Crystal Material Property Prediction. CoRR Keqiang Yan, Cong Fu, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2024	J	`jnl`	Dynamic Incremental Optimization for Best Subset Selection. CoRR Shaogang Ren, Xiaoning Qian
2024	J	`jnl`	Epidemiological Model Calibration via Graybox Bayesian Optimization. CoRR Puhua Niu, Byung-Jun Yoon, Xiaoning Qian
2024	A*	`conf`	GFlowNet Training by Policy Gradients. ICML Puhua Niu, Shili Wu, Mingzhou Fan, Xiaoning Qian
2024	J	`jnl`	GFlowNet Training by Policy Gradients. CoRR Puhua Niu, Shili Wu, Mingzhou Fan, Xiaoning Qian
2024	J	`jnl`	Hashing with Uncertainty Quantification via Sampling-based Hypothesis Testing. Trans. Mach. Learn. Res. Yucheng Wang, Mingyuan Zhou, Xiaoning Qian
2024	A*	`conf`	Hierarchical Neural Operator Transformer with Learnable Frequency-aware Loss Prior for Arbitrary-scale Super-resolution. ICML Xihaier Luo, Xiaoning Qian, Byung-Jun Yoon
2024	J	`jnl`	Hierarchical Neural Operator Transformer with Learnable Frequency-aware Loss Prior for Arbitrary-scale Super-resolution. CoRR Xihaier Luo, Xiaoning Qian, Byung-Jun Yoon
2024	J	`jnl`	Hyperparameter Tuning Through Pessimistic Bilevel Optimization. CoRR Meltem Apaydin Ustun, Liang Xu, Bo Zeng, Xiaoning Qian
2024	—	`conf`	Implicit Neural Representations for Simultaneous Reduction and Continuous Reconstruction of Multi-Altitude Climate Data. MLSP Alif Bin Abdul Qayyum, Xihaier Luo, Nathan M. Urban, Xiaoning Qian, Byung-Jun Yoon
2024	J	`jnl`	Implicit Neural Representations for Simultaneous Reduction and Continuous Reconstruction of Multi-Altitude Climate Data. CoRR Alif Bin Abdul Qayyum, Xihaier Luo, Nathan M. Urban, Xiaoning Qian, Byung-Jun Yoon
2024	A*	`conf`	Invariant Tokenization of Crystalline Materials for Language Model Enabled Generation. NeurIPS Keqiang Yan, Xiner Li, Hongyi Ling, Kenna Ashen, Carl Edwards, Raymundo Arróyave, Marinka Zitnik, Heng Ji, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2024	Misc	`conf`	Learning Active Subspaces for Effective and Scalable Uncertainty Quantification in Deep Neural Networks. ICASSP Sanket R. Jantre, Nathan M. Urban, Xiaoning Qian, Byung-Jun Yoon
2024	A*	`conf`	Learning Flexible Time-windowed Granger Causality Integrating Heterogeneous Interventional Time Series Data. KDD Ziyi Zhang, Shaogang Ren, Xiaoning Qian, Nick Duffield
2024	J	`jnl`	Learning Flexible Time-windowed Granger Causality Integrating Heterogeneous Interventional Time Series Data. CoRR Ziyi Zhang, Shaogang Ren, Xiaoning Qian, Nick Duffield
2024	J	`jnl`	LoRA-BERT: a Natural Language Processing Model for Robust and Accurate Prediction of long non-coding RNAs. CoRR Nicholas Jeon, Xiaoning Qian, Lamin SaidyKhan, Paul de Figueiredo, Byung-Jun Yoon
2024	J	`jnl`	MUSTANG: Multi-sample spatial transcriptomics data analysis with cross-sample transcriptional similarity guidance. Patterns Seyednami Niyakan, Jianting Sheng, Yuliang Cao, Xiang Zhang, Zhan Xu, Ling Wu, Stephen T. C. Wong, Xiaoning Qian
2024	A	`conf`	Multi-fidelity Bayesian Optimization with Multiple Information Sources of Input-dependent Fidelity. UAI Mingzhou Fan, Byung-Jun Yoon, Edward R. Dougherty, Nathan M. Urban, Francis J. Alexander, Raymundo Arróyave, Xiaoning Qian
2024	J	`jnl`	Multi-modal Representation Learning for Cross-modal Prediction of Continuous Weather Patterns from Discrete Low-Dimensional Data. CoRR Alif Bin Abdul Qayyum, Xihaier Luo, Nathan M. Urban, Xiaoning Qian, Byung-Jun Yoon
2024	A*	`conf`	Path-Guided Particle-based Sampling. ICML Mingzhou Fan, Ruida Zhou, Chao Tian, Xiaoning Qian
2024	J	`jnl`	Path-Guided Particle-based Sampling. CoRR Mingzhou Fan, Ruida Zhou, Chao Tian, Xiaoning Qian
2024	J	`jnl`	Pathway-based analyses of gene expression profiles at low doses of ionizing radiation. Frontiers Bioinform. Xihaier Luo, Seyednami Niyakan, Patrick R. Johnstone, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Shantenu Jha, Byung-Jun Yoon
2024	—	`conf`	Towards Invariant Time Series Forecasting in Smart Cities. WWW (Companion Volume) Ziyi Zhang, Shaogang Ren, Xiaoning Qian, Nick Duffield
2024	J	`jnl`	Towards Invariant Time Series Forecasting in Smart Cities. CoRR Ziyi Zhang, Shaogang Ren, Xiaoning Qian, Nick Duffield
2024	A	`conf`	Uncertainty-aware Continuous Implicit Neural Representations for Remote Sensing Object Counting. AISTATS Siyuan Xu, Yucheng Wang, Mingzhou Fan, Byung-Jun Yoon, Xiaoning Qian
2024	J	`jnl`	Understanding Uncertainty-based Active Learning Under Model Mismatch. CoRR Amir Hossein Rahmati, Mingzhou Fan, Ruida Zhou, Nathan M. Urban, Byung-Jun Yoon, Xiaoning Qian
2024	—	`conf`	When Uncertainty-Based Active Learning May Fail? ICPR (1) Amir Hossein Rahmati, Mingzhou Fan, Ruida Zhou, Nathan M. Urban, Byung-Jun Yoon, Xiaoning Qian
2023	—	`conf`	A Latent Diffusion Model for Protein Structure Generation. LoG Cong Fu, Keqiang Yan, Limei Wang, Wing Yee Au, Michael McThrow, Tao Komikado, Koji Maruhashi, Kanji Uchino, Xiaoning Qian, Shuiwang Ji
2023	J	`jnl`	A Latent Diffusion Model for Protein Structure Generation. CoRR Cong Fu, Keqiang Yan, Limei Wang, Wing Yee Au, Michael McThrow, Tao Komikado, Koji Maruhashi, Kanji Uchino, Xiaoning Qian, Shuiwang Ji
2023	J	`jnl`	Accelerating scientific discoveries through data-driven innovations. Patterns Francis J. Alexander, Meifeng Lin, Xiaoning Qian, Byung-Jun Yoon
2023	J	`jnl`	Artificial Intelligence for Science in Quantum, Atomistic, and Continuum Systems. CoRR Xuan Zhang, Limei Wang, Jacob Helwig, Youzhi Luo, Cong Fu, Yaochen Xie, Meng Liu, Yuchao Lin, Zhao Xu, Keqiang Yan, Keir Adams, Maurice Weiler, Xiner Li, Tianfan Fu, Yucheng Wang, Haiyang Yu, Yuqing Xie, Xiang Fu, Alex Strasser, Shenglong Xu, Yi Liu, Yuanqi Du, Alexandra Saxton, Hongyi Ling, Hannah Lawrence, Hannes Stärk, Shurui Gui, Carl Edwards, Nicholas Gao, Adriana Ladera, Tailin Wu, Elyssa F. Hofgard, Aria Mansouri Tehrani, Rui Wang, Ameya Daigavane, Montgomery Bohde, Jerry Kurtin, Qian Huang, Tuong Phung, Minkai Xu, Chaitanya K. Joshi, Simon V. Mathis, Kamyar Azizzadenesheli, Ada Fang, Alán Aspuru-Guzik, Erik J. Bekkers, Michael M. Bronstein, Marinka Zitnik, Anima Anandkumar, Stefano Ermon, Pietro Liò, Rose Yu, Stephan Günnemann, Jure Leskovec, Heng Ji, Jimeng Sun, Regina Barzilay, Tommi S. Jaakkola, Connor W. Coley, Xiaoning Qian, Xiaofeng Qian, Tess E. Smidt, Shuiwang Ji
2023	J	`jnl`	Comprehensive analysis of gene expression profiles to radiation exposure reveals molecular signatures of low-dose radiation response. CoRR Xihaier Luo, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Byung-Jun Yoon
2023	A*	`conf`	Efficient Approximations of Complete Interatomic Potentials for Crystal Property Prediction. ICML Yuchao Lin, Keqiang Yan, Youzhi Luo, Yi Liu, Xiaoning Qian, Shuiwang Ji
2023	J	`jnl`	Efficient Approximations of Complete Interatomic Potentials for Crystal Property Prediction. CoRR Yuchao Lin, Keqiang Yan, Youzhi Luo, Yi Liu, Xiaoning Qian, Shuiwang Ji
2023	A*	`conf`	Efficient and Equivariant Graph Networks for Predicting Quantum Hamiltonian. ICML Haiyang Yu, Zhao Xu, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2023	J	`jnl`	Efficient and Equivariant Graph Networks for Predicting Quantum Hamiltonian. CoRR Haiyang Yu, Zhao Xu, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2023	—	`conf`	Enhancing Cryo-EM Particle Picking Through Consistency Model-based Latent Space Denoiser. BCB Alif Bin Abdul Qayyum, Xiaoning Qian, Byung-Jun Yoon
2023	J	`jnl`	Geometric Affinity Propagation for Clustering With Network Knowledge. IEEE Trans. Knowl. Data Eng. Omar Maddouri, Xiaoning Qian, Byung-Jun Yoon
2023	J	`jnl`	Knowledge-driven learning, optimization, and experimental design under uncertainty for materials discovery. Patterns Xiaoning Qian, Byung-Jun Yoon, Raymundo Arróyave, Xiaofeng Qian, Edward R. Dougherty
2023	J	`jnl`	Learning Active Subspaces for Effective and Scalable Uncertainty Quantification in Deep Neural Networks. CoRR Sanket R. Jantre, Nathan M. Urban, Xiaoning Qian, Byung-Jun Yoon
2023	J	`jnl`	Optimal decision-making in high-throughput virtual screening pipelines. Patterns Hyun-Myung Woo, Xiaoning Qian, Li Tan, Shantenu Jha, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
2023	A*	`conf`	QH9: A Quantum Hamiltonian Prediction Benchmark for QM9 Molecules. NeurIPS Haiyang Yu, Meng Liu, Youzhi Luo, Alex Strasser, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2023	J	`jnl`	QH9: A Quantum Hamiltonian Prediction Benchmark for QM9 Molecules. CoRR Haiyang Yu, Meng Liu, Youzhi Luo, Alex Strasser, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji
2023	J	`jnl`	Sensitivity Analysis of Genome-Scale Metabolic Flux Prediction. J. Comput. Biol. Puhua Niu, Maria J. Soto, Shuai Huang, Byung-Jun Yoon, Edward R. Dougherty, Francis J. Alexander, Ian Blaby, Xiaoning Qian
2023	A	`conf`	Uncertainty-aware Unsupervised Video Hashing. AISTATS Yucheng Wang, Mingyuan Zhou, Yu Sun, Xiaoning Qian
2022	Misc	`conf`	Adaptive Group Testing with Mismatched Models. ICASSP Mingzhou Fan, Byung-Jun Yoon, Francis J. Alexander, Edward R. Dougherty, Xiaoning Qian
2022	Misc	`conf`	Attention-Based Deep Bayesian Counting For AI-Augmented Agriculture. SenSys Yucheng Wang, Mengmeng Gu, Mingyuan Zhou, Xiaoning Qian
2022	—	`conf`	Comprehensive analysis of gene expression profiles to radiation exposure reveals molecular signatures of low-dose radiation response. BIBM Xihaier Luo, Sean McCorkle, Gilchan Park, Vanessa López-Marrero, Shinjae Yoo, Edward R. Dougherty, Xiaoning Qian, Francis J. Alexander, Byung-Jun Yoon
2022	J	`jnl`	Deep graph representations embed network information for robust disease marker identification. Bioinform. Omar Maddouri, Xiaoning Qian, Byung-Jun Yoon
2022	—	`conf`	Density-Aware Personalized Training for Risk Prediction in Imbalanced Medical Data. MLHC Zepeng Huo, Xiaoning Qian, Shuai Huang, Zhangyang Wang, Bobak J. Mortazavi
2022	J	`jnl`	Density-Aware Personalized Training for Risk Prediction in Imbalanced Medical Data. CoRR Zepeng Huo, Xiaoning Qian, Shuai Huang, Zhangyang Wang, Bobak Mortazavi
2022	J	`jnl`	DynImp: Dynamic Imputation for Wearable Sensing Data Through Sensory and Temporal Relatedness. CoRR Zepeng Huo, Taowei Ji, Yifei Liang, Shuai Huang, Zhangyang Wang, Xiaoning Qian, Bobak Mortazavi
2022	Misc	`conf`	Dynimp: Dynamic Imputation for Wearable Sensing Data through Sensory and Temporal Relatedness. ICASSP Zepeng Huo, Taowei Ji, Yifei Liang, Shuai Huang, Zhangyang Wang, Xiaoning Qian, Bobak Mortazavi
2022	A*	`conf`	MoReL: Multi-omics Relational Learning. ICLR Arman Hasanzadeh, Ehsan Hajiramezanali, Nick Duffield, Xiaoning Qian
2022	J	`jnl`	MoReL: Multi-omics Relational Learning. CoRR Arman Hasanzadeh, Ehsan Hajiramezanali, Nick Duffield, Xiaoning Qian
2022	J	`jnl`	Robust importance sampling for error estimation in the context of optimal Bayesian transfer learning. Patterns Omar Maddouri, Xiaoning Qian, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
2022	A	`conf`	VFDS: Variational Foresight Dynamic Selection in Bayesian Neural Networks for Efficient Human Activity Recognition. AISTATS Randy Ardywibowo, Shahin Boluki, Zhangyang Wang, Bobak J. Mortazavi, Shuai Huang, Xiaoning Qian
2022	J	`jnl`	VFDS: Variational Foresight Dynamic Selection in Bayesian Neural Networks for Efficient Human Activity Recognition. CoRR Randy Ardywibowo, Shahin Boluki, Zhangyang Wang, Bobak Mortazavi, Shuai Huang, Xiaoning Qian
2022	A*	`conf`	VariGrow: Variational Architecture Growing for Task-Agnostic Continual Learning based on Bayesian Novelty. ICML Randy Ardywibowo, Zepeng Huo, Zhangyang Wang, Bobak J. Mortazavi, Shuai Huang, Xiaoning Qian
2021	A	`conf`	Bayesian Active Learning by Soft Mean Objective Cost of Uncertainty. AISTATS Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian
2021	J	`jnl`	COVID-Datathon: Biomarker identification for COVID-19 severity based on BALF scRNA-seq data. CoRR Seyednami Niyakan, Xiaoning Qian
2021	A*	`conf`	Contextual Dropout: An Efficient Sample-Dependent Dropout Module. ICLR Xinjie Fan, Shujian Zhang, Korawat Tanwisuth, Xiaoning Qian, Mingyuan Zhou
2021	J	`jnl`	Contextual Dropout: An Efficient Sample-Dependent Dropout Module. CoRR Xinjie Fan, Shujian Zhang, Korawat Tanwisuth, Xiaoning Qian, Mingyuan Zhou
2021	A*	`conf`	Efficient Active Learning for Gaussian Process Classification by Error Reduction. NeurIPS Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian
2021	J	`jnl`	Geometric Affinity Propagation for Clustering with Network Knowledge. CoRR Omar Maddouri, Xiaoning Qian, Byung-Jun Yoon
2021	J	`jnl`	Optimal Bayesian Transfer Learning for Count Data. IEEE ACM Trans. Comput. Biol. Bioinform. Alireza Karbalayghareh, Xiaoning Qian, Edward R. Dougherty
2021	J	`jnl`	Optimal Bayesian supervised domain adaptation for RNA sequencing data. Bioinform. Shahin Boluki, Xiaoning Qian, Edward R. Dougherty
2021	J	`jnl`	Optimal Decision Making in High-Throughput Virtual Screening Pipelines. CoRR Hyun-Myung Woo, Xiaoning Qian, Li Tan, Shantenu Jha, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
2021	J	`jnl`	Penalized Cox's proportional hazards model for high-dimensional survival data with grouped predictors. Stat. Comput. Xuan Dang, Shuai Huang, Xiaoning Qian
2021	A*	`conf`	Physics-constrained Automatic Feature Engineering for Predictive Modeling in Materials Science. AAAI Ziyu Xiang, Mingzhou Fan, Guillermo Vázquez Tovar, William Trehern, Byung-Jun Yoon, Xiaofeng Qian, Raymundo Arróyave, Xiaoning Qian
2021	J	`jnl`	Quantifying the Multi-Objective Cost of Uncertainty. IEEE Access Byung-Jun Yoon, Xiaoning Qian, Edward R. Dougherty
2021	J	`jnl`	Risk Factor Identification in Heterogeneous Disease Progression with L1-Regularized Multi-state Models. J. Heal. Informatics Res. Xuan Dang, Shuai Huang, Xiaoning Qian
2021	J	`jnl`	Robust Importance Sampling for Error Estimation in the Context of Optimal Bayesian Transfer Learning. CoRR Omar Maddouri, Xiaoning Qian, Francis J. Alexander, Edward R. Dougherty, Byung-Jun Yoon
2021	J	`jnl`	SURVFIT: Doubly sparse rule learning for survival data. J. Biomed. Informatics Ameer Hamza Shakur, Shuai Huang, Xiaoning Qian, Xiangyu Chang
2021	—	`conf`	Sparse Gated Mixture-of-Experts to Separate and Interpret Patient Heterogeneity in EHR data. BHI Zepeng Huo, Lida Zhang, Rohan Khera, Shuai Huang, Xiaoning Qian, Zhangyang Wang, Bobak J. Mortazavi
2021	A*	`conf`	Uncertainty-aware Active Learning for Optimal Bayesian Classifier. ICLR Guang Zhao, Edward R. Dougherty, Byung-Jun Yoon, Francis J. Alexander, Xiaoning Qian
2020	Misc	`conf`	Arsm Gradient Estimator for Supervised Learning to Rank. ICASSP Siamak Zamani Dadaneh, Shahin Boluki, Mingyuan Zhou, Xiaoning Qian
2020	A*	`conf`	BayReL: Bayesian Relational Learning for Multi-omics Data Integration. NeurIPS Ehsan Hajiramezanali, Arman Hasanzadeh, Nick Duffield, Krishna Narayanan, Xiaoning Qian
2020	J	`jnl`	BayReL: Bayesian Relational Learning for Multi-omics Data Integration. CoRR Ehsan Hajiramezanali, Arman Hasanzadeh, Nick Duffield, Krishna R. Narayanan, Xiaoning Qian
2020	A*	`conf`	Bayesian Graph Neural Networks with Adaptive Connection Sampling. ICML Arman Hasanzadeh, Ehsan Hajiramezanali, Shahin Boluki, Mingyuan Zhou, Nick Duffield, Krishna Narayanan, Xiaoning Qian
2020	J	`jnl`	Bayesian Graph Neural Networks with Adaptive Connection Sampling. CoRR Arman Hasanzadeh, Ehsan Hajiramezanali, Shahin Boluki, Mingyuan Zhou, Nick Duffield, Krishna Narayanan, Xiaoning Qian
2020	J	`jnl`	ClusterM: a scalable algorithm for computational prediction of conserved protein complexes across multiple protein interaction networks. BMC Genom. Yijie Wang, Hyundoo Jeong, Byung-Jun Yoon, Xiaoning Qian
2020	J	`jnl`	Deep Co-Saliency Detection via Stacked Autoencoder-Enabled Fusion and Self-Trained CNNs. IEEE Trans. Multim. Chung-Chi Tsai, Kuang-Jui Hsu, Yen-Yu Lin, Xiaoning Qian, Yung-Yu Chuang
2020	B	`conf`	GPSRL: Learning Semi-Parametric Bayesian Survival Rule Lists from Heterogeneous Patient Data. ICPR Ameer Hamza Shakur, Xiaoning Qian, Zhangyang Wang, Bobak Mortazavi, Shuai Huang
2020	A	`conf`	Learnable Bernoulli Dropout for Bayesian Deep Learning. AISTATS Shahin Boluki, Randy Ardywibowo, Siamak Zamani Dadaneh, Mingyuan Zhou, Xiaoning Qian
2020	J	`jnl`	Learnable Bernoulli Dropout for Bayesian Deep Learning. CoRR Shahin Boluki, Randy Ardywibowo, Siamak Zamani Dadaneh, Mingyuan Zhou, Xiaoning Qian
2020	J	`jnl`	Model-Based Robust Filtering and Experimental Design for Stochastic Differential Equation Systems. IEEE Trans. Signal Process. Guang Zhao, Xiaoning Qian, Byung-Jun Yoon, Francis J. Alexander, Edward R. Dougherty
2020	A*	`conf`	NADS: Neural Architecture Distribution Search for Uncertainty Awareness. ICML Randy Ardywibowo, Shahin Boluki, Xinyu Gong, Zhangyang Wang, Xiaoning Qian
2020	J	`jnl`	NADS: Neural Architecture Distribution Search for Uncertainty Awareness. CoRR Randy Ardywibowo, Shahin Boluki, Xinyu Gong, Zhangyang Wang, Xiaoning Qian
2020	A	`conf`	Neural Network Quantization with Scale-Adjusted Training. BMVC Qing Jin, Linjie Yang, Zhenyu Liao, Xiaoning Qian
2020	A	`conf`	Pairwise Supervised Hashing with Bernoulli Variational Auto-Encoder and Self-Control Gradient Estimator. UAI Siamak Zamani Dadaneh, Shahin Boluki, Mingzhang Yin, Mingyuan Zhou, Xiaoning Qian
2020	J	`jnl`	Pairwise Supervised Hashing with Bernoulli Variational Auto-Encoder and Self-Control Gradient Estimator. CoRR Siamak Zamani Dadaneh, Shahin Boluki, Mingzhang Yin, Mingyuan Zhou, Xiaoning Qian
2020	J	`jnl`	Pessimistic optimisation for modelling microbial communities with uncertainty. Int. J. Comput. Biol. Drug Des. Meltem Apaydin, Liang Xu, Bo Zeng, Xiaoning Qian
2020	J	`jnl`	Quantifying the multi-objective cost of uncertainty. CoRR Byung-Jun Yoon, Xiaoning Qian, Edward R. Dougherty
2020	Misc	`conf`	Semi-Implicit Stochastic Recurrent Neural Networks. ICASSP Ehsan Hajiramezanali, Arman Hasanzadeh, Nick Duffield, Krishna Narayanan, Mingyuan Zhou, Xiaoning Qian
2020	A	`conf`	Uncertainty Quantification for Deep Context-Aware Mobile Activity Recognition and Unknown Context Discovery. AISTATS Zepeng Huo, Arash Pakbin, Xiaohan Chen, Nathan C. Hurley, Ye Yuan, Xiaoning Qian, Zhangyang Wang, Shuai Huang, Bobak Mortazavi
2020	J	`jnl`	Uncertainty Quantification for Deep Context-Aware Mobile Activity Recognition and Unknown Context Discovery. CoRR Zepeng Huo, Arash Pakbin, Xiaohan Chen, Nathan C. Hurley, Ye Yuan, Xiaoning Qian, Zhangyang Wang, Shuai Huang, Bobak Mortazavi
2019	J	`jnl`	ARSM Gradient Estimator for Supervised Learning to Rank. CoRR Siamak Zamani Dadaneh, Shahin Boluki, Mingyuan Zhou, Xiaoning Qian
2019	A	`conf`	Adaptive Activity Monitoring with Uncertainty Quantification in Switching Gaussian Process Models. AISTATS Randy Ardywibowo, Guang Zhao, Zhangyang Wang, Bobak Mortazavi, Shuai Huang, Xiaoning Qian
2019	J	`jnl`	Adaptive Activity Monitoring with Uncertainty Quantification in Switching Gaussian Process Models. CoRR Randy Ardywibowo, Guang Zhao, Zhangyang Wang, Bobak Mortazavi, Shuai Huang, Xiaoning Qian
2019	J	`jnl`	Bayesian negative binomial regression for differential expression with confounding factors. Bioinform. Siamak Zamani Dadaneh, Mingyuan Zhou, Xiaoning Qian
2019	A*	`conf`	Collaborative Global-Local Networks for Memory-Efficient Segmentation of Ultra-High Resolution Images. CVPR Wuyang Chen, Ziyu Jiang, Zhangyang Wang, Kexin Cui, Xiaoning Qian
2019	J	`jnl`	Collaborative Global-Local Networks for Memory-Efficient Segmentation of Ultra-High Resolution Images. CoRR Wuyang Chen, Ziyu Jiang, Zhangyang Wang, Kexin Cui, Xiaoning Qian
2019	—	`conf`	Cone-Beam Computed Tomography (CBCT) Segmentation by Adversarial Learning Domain Adaptation. MICCAI (6) Xiaoqian Jia, Sicheng Wang, Xiao Liang, Anjali Balagopal, Dan Nguyen, Ming Yang, Zhangyang Wang, Jim Xiuquan Ji, Xiaoning Qian, Steve B. Jiang
2019	J	`jnl`	Constructing Pathway-Based Priors within a Gaussian Mixture Model for Bayesian Regression and Classification. IEEE ACM Trans. Comput. Biol. Bioinform. Shahin Boluki, Mohammad Shahrokh Esfahani, Xiaoning Qian, Edward R. Dougherty
2019	J	`jnl`	Dynamic Inspection of Latent Variables in State-Space Systems. IEEE Trans Autom. Sci. Eng. Tianshu Feng, Xiaoning Qian, Kaibo Liu, Shuai Huang
2019	J	`jnl`	Early detection and risk assessment for chronic disease with irregular longitudinal data analysis. J. Biomed. Informatics Kai He, Shuai Huang, Xiaoning Qian
2019	J	`jnl`	Experimental Design via Generalized Mean Objective Cost of Uncertainty. IEEE Access Shahin Boluki, Xiaoning Qian, Edward R. Dougherty
2019	J	`jnl`	Image Co-Saliency Detection and Co-Segmentation via Progressive Joint Optimization. IEEE Trans. Image Process. Chung-Chi Tsai, Weizhi Li, Kuang-Jui Hsu, Xiaoning Qian, Yen-Yu Lin
2019	J	`jnl`	Optimal Clustering with Missing Values. CoRR Shahin Boluki, Siamak Zamani Dadaneh, Xiaoning Qian, Edward R. Dougherty
2019	J	`jnl`	Optimal clustering with missing values. BMC Bioinform. Shahin Boluki, Siamak Zamani Dadaneh, Xiaoning Qian, Edward R. Dougherty
2019	J	`jnl`	RNAdetect: efficient computational detection of novel non-coding RNAs. Bioinform. Chun-Chi Chen, Xiaoning Qian, Byung-Jun Yoon
2019	J	`jnl`	Selected research articles from the 2018 International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC). BMC Bioinform. Byung-Jun Yoon, Xiaoning Qian, Tamer Kahveci, Ranadip Pal
2019	A*	`conf`	Semi-Implicit Graph Variational Auto-Encoders. NeurIPS Arman Hasanzadeh, Ehsan Hajiramezanali, Krishna R. Narayanan, Nick Duffield, Mingyuan Zhou, Xiaoning Qian
2019	J	`jnl`	Semi-Implicit Graph Variational Auto-Encoders. CoRR Arman Hasanzadeh, Ehsan Hajiramezanali, Nick Duffield, Krishna R. Narayanan, Mingyuan Zhou, Xiaoning Qian
2019	J	`jnl`	Semi-Implicit Stochastic Recurrent Neural Networks. CoRR Ehsan Hajiramezanali, Arman Hasanzadeh, Nick Duffield, Krishna R. Narayanan, Mingyuan Zhou, Xiaoning Qian
2019	J	`jnl`	TOPAS: network-based structural alignment of RNA sequences. Bioinform. Chun-Chi Chen, Hyundoo Jeong, Xiaoning Qian, Byung-Jun Yoon
2019	A*	`conf`	Variational Graph Recurrent Neural Networks. NeurIPS Ehsan Hajiramezanali, Arman Hasanzadeh, Krishna R. Narayanan, Nick Duffield, Mingyuan Zhou, Xiaoning Qian
2019	J	`jnl`	Variational Graph Recurrent Neural Networks. CoRR Ehsan Hajiramezanali, Arman Hasanzadeh, Nick Duffield, Krishna R. Narayanan, Mingyuan Zhou, Xiaoning Qian
2018	J	`jnl`	A Bayesian robust Kalman smoothing framework for state-space models with uncertain noise statistics. EURASIP J. Adv. Signal Process. Roozbeh Dehghannasiri, Xiaoning Qian, Edward R. Dougherty
2018	J	`jnl`	A Collaborative Learning Framework for Estimating Many Individualized Regression Models in a Heterogeneous Population. IEEE Trans. Reliab. Ying Lin, Kaibo Liu, Eunshin Byon, Xiaoning Qian, Shan Liu, Shuai Huang
2018	A*	`conf`	Bayesian multi-domain learning for cancer subtype discovery from next-generation sequencing count data. NeurIPS Ehsan Hajiramezanali, Siamak Zamani Dadaneh, Alireza Karbalayghareh, Mingyuan Zhou, Xiaoning Qian
2018	J	`jnl`	Bayesian multi-domain learning for cancer subtype discovery from next-generation sequencing count data. CoRR Ehsan Hajiramezanali, Siamak Zamani Dadaneh, Alireza Karbalayghareh, Mingyuan Zhou, Xiaoning Qian
2018	J	`jnl`	Bayesian negative binomial regression for differential expression with confounding factors. Bioinform. Siamak Zamani Dadaneh, Mingyuan Zhou, Xiaoning Qian
2018	J	`jnl`	Convex clustering with metric learning. Pattern Recognit. Xiaopeng Lucia Sui, Li Xu, Xiaoning Qian, Tie Liu
2018	J	`jnl`	Covariate-dependent negative binomial factor analysis of RNA sequencing data. Bioinform. Siamak Zamani Dadaneh, Mingyuan Zhou, Xiaoning Qian
2018	J	`jnl`	Fast Exact Computation of Expected HyperVolume Improvement. CoRR Guang Zhao, Raymundo Arróyave, Xiaoning Qian
2018	J	`jnl`	Intrinsically Bayesian robust Karhunen-Loève compression. Signal Process. Roozbeh Dehghannasiri, Xiaoning Qian, Edward R. Dougherty
2018	J	`jnl`	Optimal Bayesian Classification With Missing Values. IEEE Trans. Signal Process. Siamak Zamani Dadaneh, Edward R. Dougherty, Xiaoning Qian
2018	J	`jnl`	Optimal Bayesian Kalman Filtering With Prior Update. IEEE Trans. Signal Process. Roozbeh Dehghannasiri, Mohammad Shahrokh Esfahani, Xiaoning Qian, Edward R. Dougherty
2018	J	`jnl`	Optimal Bayesian Transfer Learning. CoRR Alireza Karbalayghareh, Xiaoning Qian, Edward R. Dougherty
2018	J	`jnl`	Optimal Bayesian Transfer Learning. IEEE Trans. Signal Process. Alireza Karbalayghareh, Xiaoning Qian, Edward R. Dougherty
2018	J	`jnl`	Optimal Bayesian Transfer Regression. IEEE Signal Process. Lett. Alireza Karbalayghareh, Xiaoning Qian, Edward R. Dougherty
2018	—	`conf`	Optimal Clustering with Missing Values. BCB Shahin Boluki, Siamak Zamani Dadaneh, Xiaoning Qian, Edward R. Dougherty
2018	B	`conf`	Recursive Structure Similarity: A Novel Algorithm for Graph Clustering. ICTAI Yixin Fang, Ruoming Jin, Wei Xiong, Xiaoning Qian, Dejing Dou, Hai Phan
2018	Misc	`conf`	Robust Smoothing for State-Space Models with Unknown Noise Statistics. ACSSC Roozbeh Dehghannasiri, Xiaoning Qian, Edward R. Dougherty
2018	J	`jnl`	Safe Active Feature Selection for Sparse Learning. CoRR Shaogang Ren, Jianhua Z. Huang, Shuai Huang, Xiaoning Qian
2018	J	`jnl`	Safe Feature Screening for Generalized LASSO. IEEE Trans. Pattern Anal. Mach. Intell. Shaogang Ren, Shuai Huang, Jieping Ye, Xiaoning Qian
2018	—	`conf`	Scalable Optimal Bayesian Classification of Single-Cell Trajectories under Regulatory Model Uncertainty. BCB Ehsan Hajiramezanali, Mahdi Imani, Ulisses M. Braga-Neto, Xiaoning Qian, Edward R. Dougherty
2018	J	`jnl`	Selected research articles from the 2017 International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC). BMC Bioinform. Byung-Jun Yoon, Xiaoning Qian, Tamer Kahveci, Ranadip Pal
2018	J	`jnl`	Switching-State Dynamical Modeling of Daily Behavioral Data. J. Heal. Informatics Res. Randy Ardywibowo, Shuai Huang, Shupeng Gui, Cao Xiao, Yu Cheng, Ji Liu, Xiaoning Qian
2018	—	`conf`	Unsupervised CNN-Based Co-saliency Detection with Graphical Optimization. ECCV (5) Kuang-Jui Hsu, Chung-Chi Tsai, Yen-Yu Lin, Xiaoning Qian, Yung-Yu Chuang
2017	Misc	`conf`	An objective-based experimental design framework for signal processing in the context of canonical expansions. ACSSC Roozbeh Dehghannasiri, Xiaoning Qian, Edward R. Dougherty
2017	Misc	`conf`	Bayesian Kalman filtering in the presence of unknown noise statistics using factor graphs. ACSSC Roozbeh Dehghannasiri, Mohammad Shahrokh Esfahani, Xiaoning Qian, Edward R. Dougherty
2017	J	`jnl`	CHI: A contemporaneous health index for degenerative disease monitoring using longitudinal measurements. J. Biomed. Informatics Yijun Huang, Qiang Meng, Heather L. Evans, William B. Lober, Yu Cheng, Xiaoning Qian, Ji Liu, Shuai Huang
2017	—	`conf`	CNB-MAC'17: The Fourth International Workshop on Computational Network Biology: Modeling, Analysis, and Control. BCB Byung-Jun Yoon, Xiaoning Qian, Tamer Kahveci
2017	J	`jnl`	CUFID-query: accurate network querying through random walk based network flow estimation. BMC Bioinform. Hyundoo Jeong, Xiaoning Qian, Byung-Jun Yoon
2017	J	`jnl`	Detecting Pairwise Interactive Effects of Continuous Random Variables for Biomarker Identification with Small Sample Size. IEEE ACM Trans. Comput. Biol. Bioinform. Amin Ahmadi Adl, Hye-Seung Lee, Xiaoning Qian
2017	J	`jnl`	Detection of Cooperative Interactions in Logistic Regression Models. IEEE Trans. Signal Process. Easton Li Xu, Xiaoning Qian, Tie Liu, Shuguang Cui
2017	J	`jnl`	Effective computational detection of piRNAs using n-gram models and support vector machine. BMC Bioinform. Chun-Chi Chen, Xiaoning Qian, Byung-Jun Yoon
2017	—	`conf`	Feature Selection with Interactions in Logistic Regression Models using Multivariate Synergies for a GWAS Application. BCB Easton Li Xu, Xiaoning Qian, Qilian Yu, Han Zhang, Shuguang Cui
2017	J	`jnl`	Finding low-conductance sets with dense interactions (FLCD) for better protein complex prediction. BMC Syst. Biol. Yijie Wang, Xiaoning Qian
2017	Misc	`conf`	Image co-saliency detection via locally adaptive saliency map fusion. ICASSP Chung-Chi Tsai, Xiaoning Qian, Yen-Yu Lin
2017	J	`jnl`	Incorporating biological prior knowledge for Bayesian learning via maximal knowledge-driven information priors. BMC Bioinform. Shahin Boluki, Mohammad Shahrokh Esfahani, Xiaoning Qian, Edward R. Dougherty
2017	B	`conf`	Noise-tolerant deep learning for histopathological image segmentation. ICIP Weizhi Li, Xiaoning Qian, Jim Jing-Yan Ji
2017	J	`jnl`	Optimal experimental design in the context of canonical expansions. IET Signal Process. Roozbeh Dehghannasiri, Xiaoning Qian, Edward R. Dougherty
2017	J	`jnl`	Optimal hybrid sequencing and assembly: Feasibility conditions for accurate genome reconstruction and cost minimization strategy. Comput. Biol. Chem. Chun-Chi Chen, Noushin Ghaffari, Xiaoning Qian, Byung-Jun Yoon
2017	J	`jnl`	Prognostics of surgical site infections using dynamic health data. J. Biomed. Informatics Chuyang Ke, Yan Jin, Heather L. Evans, Bill Lober, Xiaoning Qian, Ji Liu, Shuai Huang
2017	A	`conf`	Segmentation guided local proposal fusion for co-saliency detection. ICME Chung-Chi Tsai, Xiaoning Qian, Yen-Yu Lin
2017	J	`jnl`	Selected research articles from the 2016 International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC). BMC Bioinform. Byung-Jun Yoon, Xiaoning Qian, Tamer Kahveci
2016	—	`conf`	A reliable alternative of OptKnock for desirable mutant microbial strains. BHI Meltem Apaydin, Bo Zeng, Xiaoning Qian
2016	J	`jnl`	Bayesian Regression With Network Prior: Optimal Bayesian Filtering Perspective. IEEE Trans. Signal Process. Xiaoning Qian, Edward R. Dougherty
2016	J	`jnl`	Bayesian module identification from multiple noisy networks. EURASIP J. Bioinform. Syst. Biol. Siamak Zamani Dadaneh, Xiaoning Qian
2016	Misc	`conf`	Co-segmentation of multiple images through random walk on graphs. ICASSP Yijie Wang, Byung-Jun Yoon, Xiaoning Qian
2016	J	`jnl`	Detection of Cooperative Interactions in Logistic Regression Models. CoRR Easton Li Xu, Xiaoning Qian, Tie Liu, Shuguang Cui
2016	J	`jnl`	Effective comparative analysis of protein-protein interaction networks by measuring the steady-state network flow using a Markov model. BMC Bioinform. Hyundoo Jeong, Xiaoning Qian, Byung-Jun Yoon
2016	—	`conf`	Finding Low-Conductance sets with Dense interactions (FLCD) for better protein complex prediction. BCB Yijie Wang, Xiaoning Qian
2016	—	`ch.`	Inference of gene regulatory networks: validation and uncertainty. Big Data over Networks Xiaoning Qian, Byung-Jun Yoon, Edward R. Dougherty
2016	—	`conf`	Optimal experimental design in canonical expansions with applications to signal compression. GlobalSIP Roozbeh Dehghannasiri, Xiaoning Qian, Edward R. Dougherty
2016	—	`conf`	Pairwise interaction analysis of logistic regression models. GlobalSIP Easton Li Xu, Xiaoning Qian, Tie Liu, Shuguang Cui
2016	J	`jnl`	Prognostics of Surgical Site Infections using Dynamic Health Data. CoRR Chuyang Ke, Yan Jin, Heather L. Evans, Bill Lober, Xiaoning Qian, Ji Liu, Shuai Huang
2016	J	`jnl`	Sparse exponential family Principal Component Analysis. Pattern Recognit. Meng Lu, Jianhua Z. Huang, Xiaoning Qian
2016	J	`jnl`	Stochastic block coordinate Frank-Wolfe algorithm for large-scale biological network alignment. EURASIP J. Bioinform. Syst. Biol. Yijie Wang, Xiaoning Qian
2015	A	`conf`	A Scalable Algorithm for Structured Kernel Feature Selection. AISTATS Shaogang Ren, Shuai Huang, John A. Onofrey, Xenios Papademetris, Xiaoning Qian
2015	—	`conf`	A computational framework for finding functional modules across multiple biological networks. BCB Yijie Wang, Xiaoning Qian
2015	—	`conf`	A computationally efficient solution strategy for optimal gene knockouts for targeted overproduction. BCB Meltem Apaydin, Bo Zeng, Shaogang Ren, Xiaoning Qian
2015	A	`conf`	Domain-Knowledge Driven Cognitive Degradation Modeling for Alzheimer's Disease. SDM Ying Lin, Kaibo Liu, Eunshin Byon, Xiaoning Qian, Shuai Huang
2015	J	`jnl`	Efficient Vessel Feature Detection for Endoscopic Image Analysis. IEEE Trans. Biomed. Eng. Bingxiong Lin, Yu Sun, Jaime E. Sánchez, Xiaoning Qian
2015	J	`jnl`	Stochastic Block Coordinate Frank-Wolfe Algorithm for Large-Scale Biological Network Alignment. CoRR Yijie Wang, Xiaoning Qian
2015	J	`jnl`	Tumor stratification by a novel graph-regularized bi-clique finding algorithm. Comput. Biol. Chem. Amin Ahmadi Adl, Xiaoning Qian
2014	—	`conf`	Biological network clustering by robust NMF. BCB Yijie Wang, Xiaoning Qian
2014	J	`jnl`	Functional module identification in protein interaction networks by interaction patterns. Bioinform. Yijie Wang, Xiaoning Qian
2014	Misc	`conf`	Joint clustering of protein interaction networks by block modeling. ICASSP Yijie Wang, Xiaoning Qian
2014	J	`jnl`	Joint clustering of protein interaction networks through Markov random walk. BMC Syst. Biol. Yijie Wang, Xiaoning Qian
2014	J	`jnl`	Logistic Principal Component Analysis for Rare Variants in Gene-Environment Interaction Analysis. IEEE ACM Trans. Comput. Biol. Bioinform. Meng Lu, Hye-Seung Lee, David Hadley, Jianhua Z. Huang, Xiaoning Qian
2014	J	`jnl`	Network-Based Methods to Identify Highly Discriminating Subsets of Biomarkers. IEEE ACM Trans. Comput. Biol. Bioinform. Seyed Javad Sajjadi, Xiaoning Qian, Bo Zeng, Amin Ahmadi Adl
2014	—	`conf`	Network-regularized bi-clique finding for tumor stratification. BCB Amin Ahmadi Adl, Xiaoning Qian
2014	J	`jnl`	Selected Articles from the 2012 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS 2012). IEEE ACM Trans. Comput. Biol. Bioinform. Yufei Huang, Yidong Chen, Xiaoning Qian
2014	—	`conf`	Stochastic coordinate descent Frank-Wolfe algorithm for large-scale biological network alignment. GlobalSIP Yijie Wang, Xiaoning Qian
2014	Misc	`conf`	Structured sparse PCA to identify miRNA co-regulatory modules. ICASSP Shaogang Ren, Xiaoning Qian
2014	J	`jnl`	Supervised categorical principal component analysis for genome-wide association analyses. BMC Genom. Meng Lu, Hye-Seung Lee, David Hadley, Jianhua Z. Huang, Xiaoning Qian
2014	—	`conf`	Vesselness based feature extraction for endoscopic image analysis. ISBI Bingxiong Lin, Yu Sun, Jaime Sánchez, Xiaoning Qian
2013	J	`jnl`	A novel subgradient-based optimization algorithm for blockmodel functional module identification. BMC Bioinform. Yijie Wang, Xiaoning Qian
2013	J	`jnl`	Adaptive bi-level programming for optimal gene knockouts for targeted overproduction under phenotypic constraints. BMC Bioinform. Shaogang Ren, Bo Zeng, Xiaoning Qian
2013	—	`conf`	Blockmodel module identification in protein interaction networks through Markov random walk. EUSIPCO Yijie Wang, Xiaoning Qian
2013	J	`jnl`	Dense Surface Reconstruction With Shadows in MIS. IEEE Trans. Biomed. Eng. Bingxiong Lin, Yu Sun, Xiaoning Qian
2013	J	`jnl`	Feature ranking based on synergy networks to identify prognostic markers in DPT-1. EURASIP J. Bioinform. Syst. Biol. Amin Ahmadi Adl, Xiaoning Qian, Ping Xu, Kendra Vehik, Jeffrey P. Krischer
2013	A	`conf`	Functional analysis of grasping motion. IROS Wei Dai, Yu Sun, Xiaoning Qian
2013	—	`conf`	Identifying overlapping functional modules in biological networks by Markov random walk. GlobalSIP Yijie Wang, Xiaoning Qian
2013	—	`conf`	Phenotypically constrained Boolean network inference with prescribed steady states. GENSiPS Xiaoning Qian, Edward R. Dougherty
2013	J	`jnl`	Quantifying the Objective Cost of Uncertainty in Complex Dynamical Systems. IEEE Trans. Signal Process. Byung-Jun Yoon, Xiaoning Qian, Edward R. Dougherty
2013	—	`conf`	Simultaneous Tracking, 3D Reconstruction and Deforming Point Detection for Stereoscope Guided Surgery. AE-CAI Bingxiong Lin, Adrian S. Johnson, Xiaoning Qian, Jaime Sánchez, Yu Sun
2013	—	`conf`	Thin plate spline feature point matching for organ surfaces in minimally invasive surgery imaging. Image-Guided Procedures Bingxiong Lin, Yu Sun, Xiaoning Qian
2012	—	`conf`	A new phenotypically constrained control policy in boolean networks based on basins of attraction. GENSiPS Xiaoning Qian
2012	J	`jnl`	Comparative Analysis of Biological Networks: Hidden Markov model and Markov chain-based approach. IEEE Signal Process. Mag. Byung-Jun Yoon, Xiaoning Qian, Sayed Mohammad Ebrahim Sahraeian
2012	—	`conf`	Feature ranking based on synergy networks to identify prognostic markers in DPT-1. GENSiPS Amin Ahmadi Adl, Xiaoning Qian, Ping Xu, Kendra Vehik, Jeffrey P. Krischer
2012	—	`conf`	Functional module identification by block modeling using simulated annealing with path relinking. BCB Yijie Wang, Xiaoning Qian
2012	—	`conf`	How Influential Are You: Detecting Influential Bloggers in a Blogging Community. SocInfo Md. Imrul Kayes, Xiaoning Qian, John Skvoretz, Adriana Iamnitchi
2012	J	`jnl`	Intervention in Gene Regulatory Networks via Phenotypically Constrained Control Policies Based on Long-Run Behavior. IEEE ACM Trans. Comput. Biol. Bioinform. Xiaoning Qian, Edward R. Dougherty
2012	—	`conf`	Logistic principal component analysis for rare variants in gene-environment interaction analysis. GENSiPS Meng Lu, Hye-Seung Lee, David Hadley, Jianhua Z. Huang, Xiaoning Qian
2012	—	`conf`	Network-based methods to identify highly discriminating subsets of biomarkers. GENSiPS Seyed Javad Sajjadi, Xiaoning Qian, Bo Zeng
2012	Misc	`conf`	Structural intervention of gene regulatory networks by general rank-k matrix perturbation. ICASSP Xiaoning Qian, Byung-Jun Yoon, Edward R. Dougherty
2012	—	`conf`	Supervised logistic principal component analysis for pathway based genome-wide association studies. BCB Meng Lu, Jianhua Z. Huang, Xiaoning Qian
2011	J	`jnl`	A CoD-based stationary control policy for intervening in large gene regulatory networks. BMC Bioinform. Noushin Ghaffari, Ivan Ivanov, Xiaoning Qian, Edward R. Dougherty
2011	J	`jnl`	Comparative analysis of protein interaction networks reveals that conserved pathways are susceptible to HIV-1 interception. BMC Bioinform. Xiaoning Qian, Byung-Jun Yoon
2011	Misc	`conf`	Contour-based hidden Markov model to segment 2D ultrasound images. ICASSP Xiaoning Qian, Byung-Jun Yoon
2011	J	`jnl`	Enhancing the accuracy of HMM-based conserved pathway prediction using global correspondence scores. BMC Bioinform. Xiaoning Qian, Sayed Mohammad Ebrahim Sahraeian, Byung-Jun Yoon
2011	—	`conf`	Session TA8a1: Signal processing methods for representation, analysis, and control of biological systems. ACSCC Byung-Jun Yoon, Xiaoning Qian
2011	—	`conf`	Uncertainty-based essentiality in gene regulatory networks. GENSiPS Xiaoning Qian, Byung-Jun Yoon, Edward R. Dougherty
2010	J	`jnl`	A CoD-based reduction algorithm for designing stationary control policies on Boolean networks. Bioinform. Noushin Ghaffari, Ivan Ivanov, Xiaoning Qian, Edward R. Dougherty
2010	—	`conf`	A comparative study on sensitivities of Boolean networks. GENSiPS Xiaoning Qian, Edward R. Dougherty
2010	J	`jnl`	Adapting indexing trees to data distribution in feature spaces. Comput. Vis. Image Underst. Xiaoning Qian, Hemant D. Tagare
2010	J	`jnl`	Optimal embedding for shape indexing in medical image databases. Medical Image Anal. Xiaoning Qian, Hemant D. Tagare, Robert K. Fulbright, L. Rodney Long, Sameer K. Antani
2010	J	`jnl`	Selection policy-induced reduction mappings for Boolean networks. IEEE Trans. Signal Process. Ivan Ivanov, Plamen Simeonov, Noushin Ghaffari, Xiaoning Qian, Edward R. Dougherty
2010	—	`conf`	Serial nonrigid vascular registration using weighted normalized mutual information. ISBI Jung W. Suh, Dustin Scheinost, Xiaoning Qian, Albert J. Sinusas, Christopher K. Breuer, Xenophon Papademetris
2010	Misc	`conf`	Shape matching based on graph alignment using hidden Markov models. ICASSP Xiaoning Qian, Byung-Jun Yoon
2010	J	`jnl`	State reduction for network intervention in probabilistic Boolean networks. Bioinform. Xiaoning Qian, Noushin Ghaffari, Ivan Ivanov, Edward R. Dougherty
2010	J	`jnl`	Stationary and structural control in gene regulatory networks: basic concepts. Int. J. Syst. Sci. Edward R. Dougherty, Ranadip Pal, Xiaoning Qian, Michael L. Bittner, Aniruddha Datta
2009	J	`jnl`	A non-parametric vessel detection method for complex vascular structures. Medical Image Anal. Xiaoning Qian, Matthew P. Brennan, Donald P. Dione, Wawrzyniec L. Dobrucki, Marcel Jackowski, Christopher K. Breuer, Albert J. Sinusas, Xenophon Papademetris
2009	—	`conf`	Control-compatible state reduction for Boolean networks. GENSiPS Xiaoning Qian, Edward R. Dougherty
2009	J	`jnl`	Intervention in gene regulatory networks via greedy control policies based on long-run behavior. BMC Syst. Biol. Xiaoning Qian, Ivan Ivanov, Noushin Ghaffari, Edward R. Dougherty
2009	J	`jnl`	Querying Pathways in Protein Interaction Networks Based on Hidden Markov Models. J. Comput. Biol. Xiaoning Qian, Sing-Hoi Sze, Byung-Jun Yoon
2008	J	`jnl`	Effect of Function Perturbation on the Steady-State Distribution of Genetic Regulatory Networks: Optimal Structural Intervention. IEEE Trans. Signal Process. Xiaoning Qian, Edward R. Dougherty
2008	J	`jnl`	Effective visualization of complex vascular structures using a non-parametric vessel detection method. IEEE Trans. Vis. Comput. Graph. Alark Joshi, Xiaoning Qian, Donald P. Dione, Ketan R. Bulsara, Christopher K. Breuer, Albert J. Sinusas, Xenophon Papademetris
2007	A*	`conf`	Detection of Complex Vascular Structures using Polar Neighborhood Intensity Profile. ICCV Xiaoning Qian, Matthew P. Brennan, Donald P. Dione, Lawrence W. Dobrucki
2006	—	`conf`	Overcoming dropout while segmenting cardiac ultrasound images. ISBI Xiaoning Qian, Hemant D. Tagare
2006	—	`conf`	Segmentation of Rat Cardiac Ultrasound Images with Large Dropout Regions. CVPR Workshops Xiaoning Qian, Hemant D. Tagare, Zhong Tao
2005	—	`conf`	Optimal Embedding for Shape Indexing in Medical Image Databases. MICCAI (2) Xiaoning Qian, Hemant D. Tagare
2004	A*	`conf`	Shape based retrieval in NHANES II. ACM Multimedia Hemant D. Tagare, Xiaoning Qian, Robert K. Fulbright, L. Rodney Long, Sameer K. Antani
2002	—	`conf`	Optimally adapted indexing trees for medical image databases. ISBI Xiaoning Qian, Hemant D. Tagare