Xiaoyu Wang

According to our database, Xiaoyu Wang authored at least 18 papers between 2021 and 2025.

Collaborative distances:

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

2025

Identifying Protein-Nucleotide Binding Residues via Grouped Multi-task Learning and Pre-trained Protein Language Models.

Jiashun Wu, Yan Liu, Ying Zhang, Xiaoyu Wang, He Yan, Yiheng Zhu, Jiangning Song, Dong-Jun Yu

J. Chem. Inf. Model., 2025

SCREEN: A Graph-based Contrastive Learning Tool to Infer Catalytic Residues and Assess Enzyme Mutations.

Tong Pan, Yue Bi, Xiaoyu Wang, Ying Zhang, Geoffrey I. Webb, Robin B. Gasser, Lukasz A. Kurgan, Jiangning Song

Genom. Proteom. Bioinform., 2025

Multimodal geometric learning for antimicrobial peptide identification by leveraging alphafold2-predicted structures and surface features.

Zehua Sun, Jing Xu, Yumeng Zhang, Yiwen Zhang, Zhikang Wang, Xiaoyu Wang, Shanshan Li, Yuming Guo, Hsin Hui Shen, Jiangning Song

Briefings Bioinform., 2025

CoPRA: Bridging Cross-domain Pretrained Sequence Models with Complex Structures for Protein-RNA Binding Affinity Prediction.

Rong Han, Xiaohong Liu, Tong Pan, Jing Xu, Xiaoyu Wang, Wuyang Lan, Zhenyu Li, Zixuan Wang, Jiangning Song, Guangyu Wang, Ting Chen

Proceedings of the AAAI-25, Sponsored by the Association for the Advancement of Artificial Intelligence, February 25, 2025

2024

PmxPred: A data-driven approach for the identification of active polymyxin analogues against gram-negative bacteria.

Xiaoyu Wang, Nitin Patil, Fuyi Li, Zhikang Wang, Haolan Zhan, Daniel Schmidt, Philip Thompson, Yuming Guo, Cornelia B. Landersdorfer, Hsin-Hui Shen, Anton Y. Peleg, Jian Li, Jiangning Song

Comput. Biol. Medicine, January, 2024

GraphormerDTI: A graph transformer-based approach for drug-target interaction prediction.

Mengmeng Gao, Daokun Zhang, Yi Chen, Yiwen Zhang, Zhikang Wang, Xiaoyu Wang, Shanshan Li, Yuming Guo, Geoffrey I. Webb, Anh T. N. Nguyen, Lauren T. May, Jiangning Song

Comput. Biol. Medicine, 2024

MLSNet: a deep learning model for predicting transcription factor binding sites.

Yuchuan Zhang, Zhikang Wang, Fang Ge, Xiaoyu Wang, Yiwen Zhang, Shanshan Li, Yuming Guo, Jiangning Song, Dong-Jun Yu

Briefings Bioinform., 2024

MORE: a multi-omics data-driven hypergraph integration network for biomedical data classification and biomarker identification.

Yuhan Wang, Zhikang Wang, Xuan Yu, Xiaoyu Wang, Jiangning Song, Dong-Jun Yu, Fang Ge

Briefings Bioinform., 2024

Deep learning approaches for non-coding genetic variant effect prediction: current progress and future prospects.

Xiaoyu Wang, Fuyi Li, Yiwen Zhang, Seiya Imoto, Hsin-Hui Shen, Shanshan Li, Yuming Guo, Jian Yang, Jiangning Song

Briefings Bioinform., 2024

2023

SMG: self-supervised masked graph learning for cancer gene identification.

Yan Cui, Zhikang Wang, Xiaoyu Wang, Yiwen Zhang, Ying Zhang, Tong Pan, Zhe Zhang, Shanshan Li, Yuming Guo, Tatsuya Akutsu, Jiangning Song

Briefings Bioinform., September, 2023

TIMER is a Siamese neural network-based framework for identifying both general and species-specific bacterial promoters.

Yan Zhu, Fuyi Li, Xudong Guo, Xiaoyu Wang, Lachlan J. M. Coin, Geoffrey I. Webb, Jiangning Song, Cangzhi Jia

Briefings Bioinform., July, 2023

Targeting tumor heterogeneity: multiplex-detection-based multiple instance learning for whole slide image classification.

Zhikang Wang, Yue Bi, Tong Pan, Xiaoyu Wang, Chris Bain, Richard Bassed, Seiya Imoto, Jianhua Yao, Roger J. Daly, Jiangning Song

Bioinform., March, 2023

2022

Multiplex-detection Based Multiple Instance Learning Network for Whole Slide Image Classification.

Zhikang Wang, Yue Bi, Tong Pan, Xiaoyu Wang, Chris Bain, Richard Bassed, Seiya Imoto, Jianhua Yao, Jiangning Song

CoRR, 2022

PreAcrs: a machine learning framework for identifying anti-CRISPR proteins.

Lin Zhu, Xiaoyu Wang, Fuyi Li, Jiangning Song

BMC Bioinform., 2022

ASPIRER: a new computational approach for identifying non-classical secreted proteins based on deep learning.

Xiaoyu Wang, Fuyi Li, Jing Xu, Jia Rong, Geoffrey I. Webb, Zongyuan Ge, Jian Li, Jiangning Song

Briefings Bioinform., 2022

RBP-TSTL is a two-stage transfer learning framework for genome-scale prediction of RNA-binding proteins.

Xinxin Peng, Xiaoyu Wang, Yuming Guo, Zongyuan Ge, Fuyi Li, Xin Gao, Jiangning Song

Briefings Bioinform., 2022

Positive-unlabeled learning in bioinformatics and computational biology: a brief review.

Fuyi Li, Shuangyu Dong, André Leier, Meiya Han, Xudong Guo, Jing Xu, Xiaoyu Wang, Shirui Pan, Cangzhi Jia, Yang Zhang, Geoffrey I. Webb, Lachlan J. M. Coin, Chen Li, Jiangning Song

Briefings Bioinform., 2022

2021

Leveraging the attention mechanism to improve the identification of DNA N6-methyladenine sites.

Ying Zhang, Yan Liu, Jian Xu, Xiaoyu Wang, Xinxin Peng, Jiangning Song, Dong-Jun Yu

Briefings Bioinform., 2021