Publications

The selected publications below are complemented by the complete, current list on Google Scholar and ORCID.

A Multi-View Fusion Framework Integrating Graph Representations and Pre-trained Models for Drug-Target Mechanisms of Action Prediction

Published in ACM BCB 2026, 2026

A multi-view representation-learning approach for predicting drug–target mechanisms of action.

Recommended citation: Wang, F., Zhang, Y., Chen, Y., Chen, H., Yang, D., Lei, X., Wu, F.-X., Su, Y., & Xia, J. (2026). A Multi-View Fusion Framework Integrating Graph Representations and Pre-trained Models for Drug-Target Mechanisms of Action Prediction. Proceedings of the 17th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics. https://doi.org/10.1145/3807503.3819370

IIC-DTI: A Contrastive Learning Enhanced Inter–Intra Molecular Fusing Framework for Drug–Target Interaction Prediction

Published in Interdisciplinary Sciences: Computational Life Sciences, 2026

A contrastive-learning framework that integrates intra- and intermolecular information for drug–target interaction prediction.

Recommended citation: Wang, F., Ruan, D., Zhang, Y., Chen, Y., Lei, X., Wu, F.-X., Su, Y., & Zheng, C. (2026). IIC-DTI: A Contrastive Learning Enhanced Inter–Intra Molecular Fusing Framework for Drug–Target Interaction Prediction. Interdisciplinary Sciences: Computational Life Sciences, 18(3), 1165–1178. https://doi.org/10.1007/s12539-025-00799-z

Adaptive space search-based molecular evolution optimization algorithm

Published in Bioinformatics, 2024

A molecular optimization study introducing an adaptive search strategy for exploring chemical space.

Recommended citation: Wang, F., Cheng, X., Xia, X., Zheng, C., & Su, Y. (2024). Adaptive space search-based molecular evolution optimization algorithm. Bioinformatics. https://doi.org/10.1093/bioinformatics/btae446

Predicting drug-drug interactions by graph convolutional network with multi-kernel

Published in Briefings in Bioinformatics, 2022

This paper is about drug-drug.

Recommended citation: Fei Wang, Xiujuan Lei, Bo Liao, Fang-Xiang Wu. Predicting drug-drug interactions by graph convolutional network with multi-kernel, Briefings in Bioinformatics, 2022, 23(1): 1-11. https://doi.org/10.1093/bib/bbab511

Detecting functional modules in dynamic protein-protein interaction networks using Markov Clustering and Firefly Algorithm

Published in 2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 2014

This paper is about clustering in protein-protein interaction network.

Recommended citation: Xiujuan Lei, Fang-Xiang Wu, Fei Wang, and Aidong Zhang. "Detecting functional modules in dynamic protein-protein interaction networks using Markov Clustering and Firefly Algorithm." 2014 IEEE BIBM, 2014. https://doi.org/10.1109/BIBM.2014.6999131