Author

Zhuoyi Wei

Sun Yat-sen University

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

Biology Disciplines

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Bioinformatics· 5

Signature Assays, Organisms & Methods

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Approach:graph neural network· 3 Assay:scRNA-seq· 3 Research Focus:benchmarking· 2 Research Focus:cell type annotation· 2 Research Focus:clustering· 2 Approach:deep learning· 2 Research Focus:gene regulatory network inference· 2 Organism:human· 2

Frequent Co-Authors

Yuansong ZengiD· 5 shared Yuedong YangiD· 5 shared Yutong LuiD· 5 shared Weijiang YuiD· 3 shared Zixiang PaniD· 2 shared Bingling LiiD· 1 shared Chengyang ZhangiD· 1 shared Fengqi Zhong· 1 shared

Activity by Year

2021-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 32 mutual co-author links

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5 shared papersBioinformatics

Yuansong ZengORCID

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5 papers

Recent·Most cited

CellFM: a large-scale foundation model pre-trained on transcriptomics of 100 million human cells

Yuansong Zeng, Jiancong Xie, Ningyuan Shangguan, Zhuoyi Wei, Wenbing Li, Yun Su, Shuangyu Yang, Chengyang Zhang, Jinbo Zhang, Nan Fang, Hongyu Zhang, Yutong Lu, Huiying Zhao, Jue Fan, Weijiang Yu, Yuedong Yang

CellFM is a large-scale foundation model pre-trained on 100 million human cells, outperforming existing models in cell annotation, perturbation prediction, and gene function prediction.

Nature Communications · May 20, 2025Peer-reviewedBioinformatics

Identifying B-cell epitopes using AlphaFold2 predicted structures and pretrained language model

Yuansong Zeng, Zhuoyi Wei, Qianmu Yuan, Sheng Chen, Weijiang Yu, Yutong Lu, Jianzhao Gao, Yuedong Yang

GraphBepi predicts B-cell epitopes using AlphaFold2 structures and a pretrained language model, outperforming existing methods in AUC and AUPR.

Bioinformatics · Apr 1, 2023Peer-reviewedBioinformatics

Spatial Transcriptomics Prediction from Histology jointly through Transformer and Graph Neural Networks

Yuansong Zeng, Zhuoyi Wei, Weijiang Yu, Rui Yin, Yuchen Yuan, Bingling Li, Zhonghui Tang, Yutong Lu, Yuedong Yang

Hist2ST predicts RNA-seq expression from histology images using a deep learning model combining Transformer and graph neural networks, outperforming existing methods in gene expression prediction and spatial region identification.

Briefings in Bioinformatics · Jul 17, 2022Peer-reviewedBioinformatics

A Parameter-free Deep Embedded Clustering Method for Single-cell RNA-seq Data

Yuansong Zeng, Zhuoyi Wei, Fengqi Zhong, Zixiang Pan, Yutong Lu, Yuedong Yang

ADClust is a parameter-free deep embedding clustering method for scRNA-seq data that automatically determines the number of clusters and outperforms existing methods.

Briefings in Bioinformatics · Apr 19, 2022Peer-reviewedBioinformatics

A Robust and Scalable Graph Neural Network for Accurate Single Cell Classification

Yuansong Zeng, Zhuoyi Wei, Zixiang Pan, Yutong Lu, Yuedong Yang

This paper introduces GraphCS, a scalable GNN method for single-cell classification, showing improved performance on large datasets.

Briefings in Bioinformatics · Dec 13, 2021Peer-reviewedBioinformatics