Author

Yuanchen Sun

Peking University Cancer Hospital

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· 3 Microbiology· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 4 Research Focus:benchmarking· 3 Research Focus:gene regulatory network inference· 2 Assay:scRNA-seq· 2 Research Focus:cell type annotation· 1 Research Focus:cell-cell communication· 1 Research Focus:drug response / drug discovery· 1 Assay:Hi-C· 1

Frequent Co-Authors

Hua‐Jun WuiD· 4 shared Nana WeiiD· 3 shared An Liu· 2 shared Hanwen ZhuiD· 2 shared Kang-Wen Cai· 2 shared Rui-Xiang Gao· 2 shared Wen-Jie Jiang· 2 shared Ze-Yu Kuang· 2 shared

Activity by Year

2024-2025 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 39 mutual co-author links

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4 shared papersBioinformatics

Hua‐Jun WuORCID

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4 papers

Recent·Most cited

Exploring multi-level microbial interactions from individual 3D genomes to community networks

Wen-Jie Jiang, Kang-Wen Cai, Yuanchen Sun, Zhetao Zheng, Fangdi Xu, Rui-Xiang Gao, Nana Wei, Hanwen Zhu, Wang Yu-Juan, Qing Xia, Chang Lu, Chang Fu Lu, Hua‐Jun Wu

This study introduces FindMeta3D to analyze microbial 3D genomes and cross-domain interactions, revealing conserved chromatin patterns and infection-related hotspots with therapeutic implications.

bioRxiv · Dec 4, 2025 · PreprintMicrobiology

Protein large language model assisted one-to-one gene homology mapping in cross-species single-cell transcriptome integration

Ze-Yu Kuang, Yuanchen Sun, Nana Wei, Yu-Juan Wang, Hua‐Jun Wu

The paper develops a protein large language model-based method to improve gene homology mapping in cross-species single-cell transcriptome integration, increasing homology pairs and identifying novel cell-type markers.

bioRxiv · Oct 17, 2025 · PreprintBioinformatics

Hi-Compass resolves cell-type chromatin interactions by single-cell and spatial ATAC-seq data across biological scales

Yuanchen Sun, Wenjie Jiang, Kang-Wen Cai, Na-Na Wei, Fu-Ting Lai, Rui-Xiang Gao, Ze-Yu Kuang, Jia-Lu Zhou, An Liu, Han-Wen Zhu, Ming Xu, Hua‐Jun Wu

Hi-Compass predicts chromatin organization from single-cell and spatial ATAC-seq data, outperforming existing methods and enabling analysis across biological scales.

bioRxiv · May 14, 2025 · PreprintBioinformatics

CellPatch: a Highly Efficient Foundation Model for Single-Cell Transcriptomics with Heuristic Patching

Hanwen Zhu, Yushun Yuan, Jiyuan Yang, Kangwen Cai, Nana Wei, Senxin Zhang, Lu Wang, Wen-Jie Jiang, Yuanchen Sun, An Liu, Futing Lai, Yujuan Wang, Zeyu Ma, Xiaoqi Zheng, Hua‐Jun Wu

CellPatch is a lightweight foundation model for single-cell transcriptomics that achieves state-of-the-art performance with low computational costs.

bioRxiv · Nov 15, 2024 · PreprintBioinformatics