Research Output

Publications

6 results found

^* corresponding author · bold = first author

2026

AraVirusPPI: A protein language model-powered method for predicting Arabidopsis thaliana-virus protein-protein interactions

Shaoke Zhang, Jiajun Li, Mengdi Yuan, Linyang Jiang, Zhigang Li, Chunyang Wang, Wenyu Shi^*, Ziding Zhang^*

Plant Physiology, 2026.

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AASIA: A comprehensive protein structural interactome database for agricultural animals

Jiajun Li, Mengdi Yuan, Linyang Jiang, Dianke Li, Zhongtao Yin, Feng Zhu, Wenyu Shi^*, Zhuocheng Hou^*, Ziding Zhang^*

Journal of Advanced Research, 2026.

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DeepISO: deep learning-powered prediction of protein–protein interaction rewiring generated by alternative splicing

Xiaokun Guo, Linyang Jiang, Jiajun Li, Mengdi Yuan, Dianke Li, Wenyu Shi^*, Ziding Zhang^*, Stefan Wuchty^*

Genome Biology, 2026.

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Interpretable deep learning framework for mapping E3–substrate binding interfaces

Dianke Li, Yuting Zhang, Yuan Liu, Zihao Zhang, Yingjie Qu, Jiajun Li, Linyang Jiang, Lihong Diao, Ziding Zhang^*, Lingqiang Zhang^*, Chun-Ping Cui^*, Dong Li^*

Nature Communications, 2026.

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2025

Graph neural network integrated with pretrained protein language model for predicting human–virus protein–protein interactions

Linyang Jiang, Xiaodi Yang, Xiaokun Guo, Dianke Li, Jiajun Li, Stefan Wuchty, Wenyu Shi^*, Ziding Zhang^*

Briefings in Bioinformatics, 2025.

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2023

PlaASDB: a comprehensive database of plant alternative splicing events in response to stress

Xiaokun Guo, Tianpeng Wang^*, Linyang Jiang, Huan Qi, Ziding Zhang^*

BMC Plant Biology, 2023.

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