Author

Hongyu Zhang

Peking University

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

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Biology Disciplines

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Bioinformatics· 1 Cell Biology· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Approach:transformer / foundation model· 2 Research Focus:benchmarking· 1 Research Focus:cell signaling & trafficking· 1 Approach:experimental assay· 1 Assay:fluorescence / live-cell microscopy· 1 Organism:human· 1 Assay:imaging· 1

Frequent Co-Authors

Changde DuiD· 1 shared Changxin Wu· 1 shared Cunhang Fan· 1 shared Daixi LiiD· 1 shared Fan XuiD· 1 shared Feng YiniD· 1 shared G. Chen· 1 shared George Ford· 1 shared

Activity by Year

2023-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 12 mutual co-author links

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1 shared paperNeuroscience

Changde DuORCID

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Author profile →

3 papers

Recent·Most cited

Hedgehog Pathway Activity Downstream of Smoothened is regulated specifically by Basal Ciliary PKA

Hongyu Zhang, Shujing Chen, Zhuoya Huang, Jin Ben, Yanling Wei, G. Chen, Changxin Wu, Haibo Xie, Philip William Ingham, Zhonghua Zhao

This study investigates how PKA activity in primary cilia regulates the Hedgehog pathway, showing that ciliary PKA specifically modulates the pathway even when cilia are disrupted.

Cellular & Molecular Biology Letters · Apr 9, 2026Peer-reviewedCell Biology

Representation, Alignment, and Generation: A Comprehensive Survey of Foundation Models for Non-Invasive Brain Decoding

Yifan Wang, Shaonan Wang, Wenhao Cai, George Ford, Yang Cui, Yunhao Zhang, Changde Du, Cunhang Fan, Jixing Li, Hongpeng Zhou, Hongyu Zhang, Quanying Liu, Wei Huang, Yizhuo Lu, Zijiao Chen, Jingyuan Sun

This paper surveys foundation models for non-invasive brain decoding, reviewing their applications and challenges in visual, language, and auditory domains.

bioRxiv · Apr 8, 2026 · PreprintNeuroscience

Peptide generative design with 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

This paper introduces PepGenWOA, a generative model for bioactive peptide design that outperforms existing methods and enables efficient virtual screening.

bioRxiv · Dec 31, 2023 · PreprintBioinformatics