Author

Yuanye Bao

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· 2 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Assay:spatial transcriptomics· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Approach:experimental assay· 1 Organism:human· 1 Approach:large language model· 1 Research Focus:perturbation response prediction· 1

Frequent Co-Authors

Erkai LiuiD· 3 shared Gufeng WangiD· 3 shared Luyang ZhaoiD· 3 shared Gailing LiiD· 2 shared Huihua Xia· 2 shared Renjie Liao· 2 shared Wei CheniD· 2 shared Zaoxu XuiD· 2 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 39 mutual co-author links

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3 shared papersBioinformatics

Erkai LiuORCID

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Author profile →

3 papers

Recent·Most cited

OCellus: A Language-Model Framework for Single-Cell, Spatial, and Perturbation Biology with Natural-Language Reasoning

C H I Zhang, Jia Sun, Zaoxu Xu, Renjie Liao, An Yin, Hui Gao, Erkai Liu, Yuanye Bao, Luyang Zhao, Gufeng Wang

OCellus is a language model that addresses limitations in single-cell, spatial, and perturbation biology by integrating natural-language reasoning across multiple tasks.

bioRxiv · Jul 12, 2026 · PreprintBioinformatics

Multi-Dimensional Spatiotemporal Attention Neural Network for Next Generation Sequencing Basecalling

Kuankuan Peng, Wei Chen, Tianran Yao, Huihua Xia, Guoli Fu, Gailing Li, Yuanye Bao, Erkai Liu, Luyang Zhao, Gufeng Wang

This paper introduces AICall, a deep learning model that improves basecalling accuracy in NGS by using a spatiotemporal attention mechanism, achieving an error rate below 0.01%.

bioRxiv · Nov 6, 2025 · PreprintBioinformatics

Sequencing-based Spatial Transcriptomics with scRNA-seq Sensitivity

Renjie Liao, Defeng Fu, Zaoxu Xu, Han Liang, Xiaoran Zhou, Yiling Elaine Chen, Xue‐Qi Liu, Ji Cheng, Ruidong Guo, Li Chen, Huihua Xia, Gailing Li, Diewen Feng, Wei Chen, Yang Chen, , Gufeng Wang

This paper introduces a sequencing-based spatial transcriptomics system with sub-cellular resolution and significantly improved capture efficiency compared to existing methods.

bioRxiv · Jan 15, 2025 · PreprintMolecular Biology