Pengyu Hong - RankMe

88 papers A* 7A 4B 6C 5Misc 3Journal 48Unranked 13

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	AI-assisted literature screening: A hybrid approach using large language models and retrieval-augmented generation. Int. J. Medical Informatics Yiming Li, Xinsong Du, Yifei Wang, Xinyu Chen, Zhengyang Zhou, John Lian, Ya-Wen Chuang, Pengyu Hong, Peter C. Hou, Li Zhou
2026	J	`jnl`	Performance and improvement strategies for adapting generative large language models for electronic health record applications: A systematic review. Int. J. Medical Informatics Xinsong Du, Zhengyang Zhou, Yifei Wang, Ya-Wen Chuang, Yiming Li, Richard Yang, Pengyu Hong, David W. Bates, Li Zhou
2026	J	`jnl`	Testing and evaluation of generative large language models in electronic health record applications: a systematic review. J. Am. Medical Informatics Assoc. Xinsong Du, Zhengyang Zhou, Yifei Wang, Ya-Wen Chuang, Yiming Li, Richard Yang, Wenyu Zhang, Xinyi Wang, Xinyu Chen, Hao Guan, John Lian, Pengyu Hong, David W. Bates, Li Zhou
2025	J	`jnl`	2DNMRGym: An Annotated Experimental Dataset for Atom-Level Molecular Representation Learning in 2D NMR via Surrogate Supervision. CoRR Yunrui Li, Hao Xu, Pengyu Hong
2025	J	`jnl`	Advancing Drug Discovery with Enhanced Chemical Understanding via Asymmetric Contrastive Multimodal Learning. J. Chem. Inf. Model. Yifei Wang, Yunrui Li, Lin Liu, Pengyu Hong, Hao Xu
2025	J	`jnl`	Cross-Modality Controlled Molecule Generation with Diffusion Language Model. CoRR Yunzhe Zhang, Yifei Wang, Khanh Vinh Nguyen, Pengyu Hong
2025	J	`jnl`	Doc2Agent: Scalable Generation of Tool-Using Agents from API Documentation. CoRR Xinyi Ni, Haonan Jian, Qiuyang Wang, Vedanshi Chetan Shah, Pengyu Hong
2025	J	`jnl`	Multiple Abstraction Level Retrieve Augment Generation. CoRR Zheng Zheng, Xinyi Ni, Pengyu Hong
2025	J	`jnl`	ToolFactory: Automating Tool Generation by Leveraging LLM to Understand REST API Documentations. CoRR Xinyi Ni, Qiuyang Wang, Yukun Zhang, Pengyu Hong
2025	—	`conf`	Uncertainty Quantification for Clinical Outcome Predictions with (Large) Language Models. NAACL (Findings) Zizhang Chen, Peizhao Li, Xiaomeng Dong, Pengyu Hong
2024	J	`jnl`	Assessing fairness in machine learning models: A study of racial bias using matched counterparts in mortality prediction for patients with chronic diseases. J. Biomed. Informatics Yifei Wang, Liqin Wang, Zhengyang Zhou, John Laurentiev, Joshua R. Lakin, Li Zhou, Pengyu Hong
2024	J	`jnl`	Deep-learning Optical Flow Outperforms PIV in Obtaining Velocity Fields from Active Nematics. CoRR Phu N. Tran, Sattvic Ray, Linnea Lemma, Yunrui Li, Reef Sweeney, Aparna Baskaran, Zvonimir Dogic, Pengyu Hong, Michael F. Hagan
2024	J	`jnl`	GlycoNMR: Dataset and Benchmark of Carbohydrate-Specific NMR Chemical Shift for Machine Learning Research. J. Data-centric Mach. Learn. Res. Zizhang Chen, Ryan Paul Badman, Bethany Lachele Foley, Robert J Woods, Pengyu Hong
2024	J	`jnl`	Graph Multi-Similarity Learning for Molecular Property Prediction. CoRR Hao Xu, Zhengyang Zhou, Pengyu Hong
2024	J	`jnl`	Graph-Graph Similarity Network. IEEE Trans. Neural Networks Learn. Syst. Han Yue, Pengyu Hong, Hongfu Liu
2024	J	`jnl`	Multimodal Fusion with Relational Learning for Molecular Property Prediction. CoRR Zhengyang Zhou, Hao Xu, Pengyu Hong
2024	J	`jnl`	Question Rephrasing for Quantifying Uncertainty in Large Language Models: Applications in Molecular Chemistry Tasks. CoRR Zizhang Chen, Pengyu Hong, Sandeep Madireddy
2024	J	`jnl`	Reflections from the 2024 Large Language Model (LLM) Hackathon for Applications in Materials Science and Chemistry. CoRR Yoel Zimmermann, Adib Bazgir, Zartashia Afzal, Fariha Agbere, Qianxiang Ai, Nawaf Alampara, Alexander Al-Feghali, Mehrad Ansari, Dmytro Antypov, Amro Aswad, Jiaru Bai, Viktoriia Baibakova, Devi Dutta Biswajeet, Erik Bitzek, Joshua D. Bocarsly, Anna S. Borisova, Andres M. Bran, L. Catherine Brinson, Marcel Moran Calderon, Alessandro Canalicchio, Victor Chen, Yuan Chiang, Defne Circi, Benjamin Charmes, Vikrant Chaudhary, Zizhang Chen, Min-Hsueh Chiu, Judith Clymo, Kedar Dabhadkar, Nathan Daelman, Archit Datar, Matthew L. Evans, Maryam Ghazizade Fard, Giuseppe Fisicaro, Abhijeet Sadashiv Gangan, Janine George, Jose D. Cojal Gonzalez, Michael Götte, Ankur K. Gupta, Hassan Harb, Pengyu Hong, Abdelrahman Ibrahim, Ahmed Ilyas, Alishba Imran, Kevin Ishimwe, Ramsey Issa, Kevin Maik Jablonka, Colin Jones, Tyler R. Josephson, Greg Juhasz, Sarthak Kapoor, Rongda Kang, Ghazal Khalighinejad, Sartaaj Khan, Sascha Klawohn, Suneel Kuman, Alvin Noe Ladines, Sarom Leang, Magdalena Lederbauer, Sheng-Lun Mark Liao, Hao Liu, Xuefeng Liu, Stanley Lo, Sandeep Madireddy, Piyush Ranjan Maharana, Shagun Maheshwari, Soroush Mahjoubi, José A. Márquez, Rob Mills, Trupti Mohanty, Bernadette Mohr, Seyed Mohamad Moosavi, Alexander Moßhammer, Amirhossein D. Naghdi, Aakash Naik, Oleksandr Narykov, Hampus Näsström, Xuan Vu Nguyen, Xinyi Ni, Dana O'Connor, Teslim Olayiwola, Federico Ottomano, Aleyna Beste Ozhan, Sebastian Pagel, Chiku Parida, Jaehee Park, Vraj Patel, Elena Patyukova, Martin Hoffmann Petersen, Luis Pinto, José M. Pizarro, Dieter Plessers, Tapashree Pradhan, Utkarsh Pratiush, Charishma Puli, Andrew Qin, Mahyar Rajabi, Francesco Ricci, Elliot Risch, Martiño Ríos-García
2024	J	`jnl`	Solvent-Aware 2D NMR Prediction: Leveraging Multi-Tasking Training and Iterative Self-Training Strategies. CoRR Yunrui Li, Hao Xu, Pengyu Hong
2024	J	`jnl`	Theoretical Corrections and the Leveraging of Reinforcement Learning to Enhance Triangle Attack. CoRR Nicole Meng, Caleb Manicke, David Chen, Yingjie Lao, Caiwen Ding, Pengyu Hong, Kaleel Mahmood
2024	J	`jnl`	Uncertainty Quantification for Clinical Outcome Predictions with (Large) Language Models. CoRR Zizhang Chen, Peizhao Li, Xiaomeng Dong, Pengyu Hong
2023	J	`jnl`	Asymmetric Contrastive Multimodal Learning for Advancing Chemical Understanding. CoRR Hao Xu, Yifei Wang, Yunrui Li, Pengyu Hong
2023	A*	`conf`	Characterizing the Influence of Graph Elements. ICLR Zizhang Chen, Peizhao Li, Hongfu Liu, Pengyu Hong
2023	J	`jnl`	Counterpart Fairness - Addressing Systematic between-group Differences in Fairness Evaluation. CoRR Yifei Wang, Zhengyang Zhou, Liqin Wang, John Laurentiev, Peter Hou, Li Zhou, Pengyu Hong
2023	J	`jnl`	GlycoNMR: Dataset and benchmarks for NMR chemical shift prediction of carbohydrates with graph neural networks. CoRR Zizhang Chen, Ryan Paul Badman, Lachele Foley, Robert Woods, Pengyu Hong
2023	J	`jnl`	Molecular Identification and Peak Assignment: Leveraging Multi-Level Multimodal Alignment on NMR. CoRR Hao Xu, Zhengyang Zhou, Pengyu Hong
2023	J	`jnl`	Motif-Based Graph Representation Learning with Application to Chemical Molecules. Informatics Yifei Wang, Shiyang Chen, Guobin Chen, Ethan Shurberg, Hang Liu, Pengyu Hong
2022	J	`jnl`	Characterizing the Influence of Graph Elements. CoRR Zizhang Chen, Peizhao Li, Hongfu Liu, Pengyu Hong
2022	J	`jnl`	Knowledgebra: An Algebraic Learning Framework for Knowledge Graph. CoRR Tong Yang, Yifei Wang, Long Sha, Jan Engelbrecht, Pengyu Hong
2022	J	`jnl`	Knowledgebra: An Algebraic Learning Framework for Knowledge Graph. Mach. Learn. Knowl. Extr. Tong Yang, Yifei Wang, Long Sha, Jan Engelbrecht, Pengyu Hong
2022	J	`jnl`	Motif-based Graph Representation Learning with Application to Chemical Molecules. CoRR Yifei Wang, Shiyang Chen, Guobin Chen, Ethan Shurberg, Hang Liu, Pengyu Hong
2021	J	`jnl`	Network-based virus-host interaction prediction with application to SARS-CoV-2. Patterns Hangyu Du, Feng Chen, Hongfu Liu, Pengyu Hong
2021	A*	`conf`	On Dyadic Fairness: Exploring and Mitigating Bias in Graph Connections. ICLR Peizhao Li, Yifei Wang, Han Zhao, Pengyu Hong, Hongfu Liu
2021	J	`jnl`	Predicting the Stereoselectivity of Chemical Transformations by Machine Learning. CoRR Justin Li, Dakang Zhang, Yifei Wang, Christopher Ye, Hao Xu, Pengyu Hong
2020	J	`jnl`	A Deep Learning Approach for COVID-19 Trend Prediction. CoRR Tong Yang, Long Sha, Justin Li, Pengyu Hong
2020	J	`jnl`	A Group-Theoretic Framework for Knowledge Graph Embedding. CoRR Tong Yang, Long Sha, Pengyu Hong
2020	J	`jnl`	IMMIGRATE: A Margin-Based Feature Selection Method with Interaction Terms. Entropy Ruzhang Zhao, Pengyu Hong, Jun S. Liu
2020	A	`conf`	NagE: Non-Abelian Group Embedding for Knowledge Graphs. CIKM Tong Yang, Long Sha, Pengyu Hong
2020	A*	`conf`	Probabilistic Connection Importance Inference and Lossless Compression of Deep Neural Networks. ICLR Xin Xing, Long Sha, Pengyu Hong, Zuofeng Shang, Jun S. Liu
2020	J	`jnl`	Variance Regularization for Accelerating Stochastic Optimization. CoRR Tong Yang, Long Sha, Pengyu Hong
2019	C	`conf`	Robust Query Execution Time Prediction for Concurrent Workloads on Massive Parallel Processing Databases. IEA/AIE Zhihao Zheng, Yuanzhe Bei, Hongyan Sun, Pengyu Hong
2018	J	`jnl`	IMMIGRATE: A Margin-based Feature Selection Method with Interaction Terms. CoRR Ruzhang Zhao, Pengyu Hong, Jun S. Liu
2018	A*	`conf`	Robust Detection of Adversarial Attacks by Modeling the Intrinsic Properties of Deep Neural Networks. NeurIPS Zhihao Zheng, Pengyu Hong
2017	—	`conf`	Neural Knowledge Tracing. BFAL Long Sha, Pengyu Hong
2016	J	`jnl`	Recognition of the Temperature Condition of a Rotary Kiln Using Dynamic Features of a Series of Blurry Flame Images. IEEE Trans. Ind. Informatics Hua Chen, Xiaogang Zhang, Pengyu Hong, Hongping Hu, Xiang Yin
2016	J	`jnl`	Robust differential expression analysis by learning discriminant boundary in multi-dimensional space of statistical attributes. BMC Bioinform. Yuanzhe Bei, Pengyu Hong
2015	—	`conf`	Maximizing margin quality and quantity. MLSP Yuanzhe Bei, Pengyu Hong
2013	J	`jnl`	A novel approach to minimize false discovery rate in genome-wide data analysis. BMC Syst. Biol. Yuanzhe Bei, Pengyu Hong
2013	—	`conf`	Psychiatric insights into liver cirrhosis and their correlations with traditional Chinese medicine diagnostics. BIBM Yuanzhe Bei, Pengyu Hong, Fangyuan Ke, Yang Zhou, Lieming Xu, Meiping Zhu
2013	J	`jnl`	Temporal relation discovery between events and temporal expressions identified in clinical narrative. J. Biomed. Informatics Yao Cheng, Peter Anick, Pengyu Hong, Nianwen Xue
2012	—	`conf`	An advanced method for identifying protein-protein interaction by analyzing TAP/MS data. BIBM Xiaoyun Sun, Pengyu Hong, Meghana Kulkarni, Young Kwon, Norbert Perrimon
2012	—	`conf`	Significance analysis by minimizing false discovery rate. BIBM Yuanzhe Bei, Pengyu Hong
2012	Misc	`conf`	Towards an Annotation Schema for Cancer Trajectory State Detection. AMIA Jeremy L. Warner, Peter Anick, Kenneth Roach, Nianwen Xue, Robin M. Joyce, Charles Safran, Pengyu Hong
2010	J	`jnl`	Automatic Robust Neurite Detection and Morphological Analysis of Neuronal Cell Cultures in High-content Screening. Neuroinformatics Chaohong Wu, Joost Schulte, Katharine J. Sepp, J. Troy Littleton, Pengyu Hong
2010	—	`conf`	Novel Morphological Phenotypes Discovery in High-Content Screens Using Underused Features. BICoB Chen Lin, Pengyu Hong, Chris Bakal, Norbert Perrimon
2009	J	`jnl`	Automatic inference of multicellular regulatory networks using informative priors. Int. J. Comput. Biol. Drug Des. Xiaoyun Sun, Pengyu Hong
2008	—	`conf`	Improving Automatic Inference of the Biological Network Governing C. elegans Vulval Induction by Incorporating Interaction Data. BIOCOMP Xiaoyun Sun, Pengyu Hong
2007	—	`conf`	Computational modeling of ISMB/ECCB (Supplement of Bioinformatics) Xiaoyun Sun, Pengyu Hong
2007	C	`conf`	Intelligent Interfaces for Mining Large-Scale RNAi-HCS Image Databases. BIBE Chen Lin, Wayne Mak, Pengyu Hong, Katharine J. Sepp, Norbert Perrimon
2005	J	`jnl`	A boosting approach for motif modeling using ChIP-chip data. Bioinform. Pengyu Hong, Xiaole Shirley Liu, Qing Zhou, Xin Lu, Jun S. Liu, Wing Hung Wong
2005	J	`jnl`	GeneNotes - A novel information management software for biologists. BMC Bioinform. Pengyu Hong, Wing Hung Wong
2005	—	`ch.`	Learning 3D Face Animation Model. Encyclopedia of Information Science and Technology (III) Zhen Wen, Pengyu Hong, Jilin Tu, Thomas S. Huang
2005	J	`jnl`	Ubic2 - Towards Ubiquitous Bio-Information Computing: Data Protocols, Middleware, and Web Services for Heterogeneous Biological Information Integration and Retrieval. Int. J. Softw. Eng. Knowl. Eng. Pengyu Hong, Sheng Zhong, Wing Hung Wong
2004	A	`conf`	A probabilistic approach to reference resolution in multimodal user interfaces. IUI Joyce Y. Chai, Pengyu Hong, Michelle X. Zhou
2004	A*	`conf`	Optimization in Multimodal Interpretation. ACL Joyce Y. Chai, Pengyu Hong, Michelle X. Zhou, Zahar Prasov
2004	—	`conf`	Performance Evaluation and Error Analysis for Multimodal Reference Resolution in a Conversation System. HLT-NAACL (Short Papers) Joyce Y. Chai, Zahar Prasov, Pengyu Hong
2004	J	`jnl`	Spatial pattern discovery by learning a probabilistic parametric model from multiple attributed relational graphs. Discret. Appl. Math. Pengyu Hong, Thomas S. Huang
2004	C	`conf`	Towards Ubiquitous Bio-Information Computing: Data Protocols, Middleware, and Web Services for Heterogeneous Biological Information Integration and Retrieval. BIBE Pengyu Hong, Sheng Zhong, Wing Hung Wong
2002	Misc	`conf`	Automatic temporal pattern extraction and association. ICASSP Pengyu Hong, Thomas S. Huang
2002	Misc	`conf`	Exemplar-based face and facial motion tracking. ICASSP Thomas S. Huang, Pengyu Hong
2002	—	`conf`	Multimodal Temporal Pattern Mining. ICPR (3) Pengyu Hong, Thomas S. Huang
2002	—	`conf`	Real-Time Speech-Driven 3D Face Animation. 3DPVT Pengyu Hong, Zhen Wen, Thomas S. Huang, Heung-Yeung Shum
2002	J	`jnl`	Real-time speech-driven face animation with expressions using neural networks. IEEE Trans. Neural Networks Pengyu Hong, Zhen Wen, Thomas S. Huang
2001	—	`—`	An Integrated Framework for Face Modeling, Facial Motion Analysis and Synthesis Pengyu Hong
2001	A*	`conf`	An integrated framework for face modeling, facial motion analysis and synthesis. ACM Multimedia Pengyu Hong, Zhen Wen, Thomas S. Huang
2001	A	`conf`	Real Time Speech Driven Facial Animation Using Formant Analysis. ICME Zhen Wen, Pengyu Hong, Thomas S. Huang
2001	C	`conf`	Spatial pattern discovering by learning the isomorphic subgraph from multiple attributed relation graphs. IWCIA Pengyu Hong, Thomas S. Huang
2001	J	`jnl`	iFACE: A 3D Synthetic Talking Face. Int. J. Image Graph. Pengyu Hong, Zhen Wen, Thomas S. Huang
2000	B	`conf`	Constructing Finite State Machines for Fast Gesture Recognition. ICPR Pengyu Hong, Thomas S. Huang, Matthew Turk
2000	B	`conf`	Gesture Modeling and Recognition Using Finite State Machines. FG Pengyu Hong, Thomas S. Huang, Matthew Turk
2000	B	`conf`	Incorporate Support Vector Machines to Content-Based Image Retrieval with Relevant Feedback. ICIP Pengyu Hong, Qi Tian, Thomas S. Huang
2000	A*	`conf`	Learning Patterns from Images by Combining Soft Decisions and Hard Decisions. CVPR Pengyu Hong, Thomas S. Huang, Roy Wang
2000	B	`conf`	Learning to Extract Temporal Signal Patterns from Temporal Signal Sequence. ICPR Pengyu Hong, Thomas S. Huang
2000	B	`conf`	Memory-Based Moving Object Extraction for Video Indexing. ICPR Roy Wang, Pengyu Hong, Thomas S. Huang
2000	A	`conf`	Update Relevant Image Weights for Content-Based Image Retrieval using Support Vector Machines. IEEE International Conference on Multimedia and Expo (II) Qi Tian, Pengyu Hong, Thomas S. Huang
1999	B	`conf`	A new scheme for extracting multi-temporal sequence patterns. IJCNN Pengyu Hong, Sylvian R. Ray, Thomas S. Huang
1999	—	`conf`	Natural Mouse; A Novel Human Computer Interface. ICIP (1) Pengyu Hong, Thomas S. Huang
1998	C	`conf`	Mouth motion learning and generating from observation. MMSP Pengyu Hong, Thomas S. Huang, Xueyin Lin