Zhiwei Nie

According to our database, Zhiwei Nie authored at least 15 papers between 2023 and 2026.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2026

Learning Protein Structure-Function Relationships through Knowledge-guided Representation Decomposition.

Mingqing Wang, Zhiwei Nie, Athanasios V. Vasilakos, Yonghong He, Zhixiang Ren

CoRR, May, 2026

Personalized federated learning on quantile regression for heterogeneous missing data.

Yi Lu, Zhiwei Nie, Chen Liu, Xuejun Ma

Knowl. Based Syst., 2026

Pseudodata-Guided Invariant Representation Learning Boosts the Out-of-Distribution Generalization in Enzymatic Kinetic Parameter Prediction.

Haomin Wu, Zhiwei Nie, Hongyu Zhang, Zhixiang Ren

J. Chem. Inf. Model., 2026

BiHiTo: Biomolecular Hierarchy-inspired Tokenization.

Ruochong Zheng, Yutian Liu, Yian Zhao, Zhiwei Nie, Xuehan Hou, Chang Liu, Siwei Ma, Youdong Mao, Jie Chen

Proceedings of the Fortieth AAAI Conference on Artificial Intelligence, 2026

ProAR: Probabilistic Autoregressive Modeling for Molecular Dynamics.

Kaiwen Cheng, Yutian Liu, Zhiwei Nie, Mujie Lin, Yanzhen Hou, Yiheng Tao, Chang Liu, Jie Chen, Youdong Mao, Yonghong Tian

Proceedings of the Fortieth AAAI Conference on Artificial Intelligence, 2026

2025

Predicting protein stability changes upon mutations with dual-view ensemble learning from single sequence.

Zhiwei Nie, Yiming Ma, Yutian Liu, Xiansong Huang, Zhihong Liu, Peng Yang, Fan Xu, Feng Yin, Zigang Li, Jie Fu, Zhixiang Ren, Wen-Bin Zhang, Jie Chen

Briefings Bioinform., July, 2025

OmniESI: A unified framework for enzyme-substrate interaction prediction with progressive conditional deep learning.

Zhiwei Nie, Hongyu Zhang, Hao Jiang, Yutian Liu, Xiansong Huang, Fan Xu, Jie Fu, Zhixiang Ren, Yonghong Tian, Wen-Bin Zhang, Jie Chen

CoRR, June, 2025

Generative prediction of real-world prevalent SARS-CoV-2 mutation with <i>in silico</i> virus evolution.

Xudong Liu, Zhiwei Nie, Haorui Si, Xurui Shen, Yutian Liu, Xiansong Huang, Tianyi Dong, Fan Xu, Zhixiang Ren, Peng Zhou, Jie Chen

Briefings Bioinform., May, 2025

A unified evolution-driven deep learning framework for virus variation driver prediction.

Zhiwei Nie, Xudong Liu, Jie Chen, Zhennan Wang, Yutian Liu, Haorui Si, Tianyi Dong, Fan Xu, Guoli Song, Yu Wang, Peng Zhou, Wen Gao, Yonghong Tian

Nat. Mac. Intell., 2025

A Unified Peptide Generative Framework via a Weakly Order-Dependent Autoregressive Language Model and Lifelong Learning.

Zhiwei Nie, Daixi Li, Yutian Liu, Fan Xu, Hongyu Zhang, Xiansong Huang, Xudong Liu, Zhennan Wang, Yiming Ma, Yuxin Ye, Feng Yin, Wen-Bin Zhang, Zhixiang Ren, Zhihong Liu, Zigang Li, Jie Chen

J. Chem. Inf. Model., 2025

Aligning sequence and structure representations leveraging protein domains for function prediction.

Mingqing Wang, Zhiwei Nie, Yonghong He, Athanasios V. Vasilakos, Zhixiang Ren

Expert Syst. Appl., 2025

Deep learning methods for protein representation and function prediction: A comprehensive overview.

Mingqing Wang, Zhiwei Nie, Yonghong He, Athanasios V. Vasilakos, Qiang Shawn Cheng, Zhixiang Ren

Eng. Appl. Artif. Intell., 2025

MTPNet: Multi-Grained Target Perception for Unified Activity Cliff Prediction.

Zishan Shu, Yufan Deng, Hongyu Zhang, Zhiwei Nie, Jie Chen

Proceedings of the Thirty-Fourth International Joint Conference on Artificial Intelligence, 2025

2024

ProtFAD: Introducing function-aware domains as implicit modality towards protein function perception.

Mingqing Wang, Zhiwei Nie, Yonghong He, Zhixiang Ren

CoRR, 2024

2023

Running ahead of evolution - AI-based simulation for predicting future high-risk SARS-CoV-2 variants.

Jie Chen, Zhiwei Nie, Yu Wang, Kai Wang, Fan Xu, Zhiheng Hu, Bing Zheng, Zhennan Wang, Guoli Song, Jingyi Zhang, Jie Fu, Xiansong Huang, Zhongqi Wang, Zhixiang Ren, Qiankun Wang, Daixi Li, Dongqing Wei, Bin Zhou, Chao Yang, Yonghong Tian

Int. J. High Perform. Comput. Appl., November, 2023