Author
Fudan UniversityORCID 0009-0005-8075-261XUnclaimed ORCID profile · follow to get notified of new preprints
5 papers
Recent·Most cited
Qi Zou, Zhikang Wang, Sijie Li, Senlin Lin, Chuangyi Han, Yan Cui, Shengxi Li, Lin Wang, Daoliang Zhang, Wei Zhang, Binzhi Qian, Rui Gao, Zhiyuan Yuan
GeneSPOT is a gene-centric framework that characterizes spatial gene relationships and their reorganization across biological conditions and time.
bioRxiv · Sep 29, 2026 · PreprintBioinformatics
Zhikang Wang, Yunzhi Yan, Xinwang Yang, Daoliang Zhang, Chuangyi Han, Qi Zou, Yixuan Du, Zheqi Hu, Zhiyuan Yuan
This paper introduces Histo3D-MO, a framework for reconstructing 3D spatial multi-omics maps at single-cell resolution, revealing spatial patterns in tumor microenvironments.
bioRxiv · Jul 14, 2026 · PreprintBioinformatics
Zhikang Wang, Qi Zou, Senlin Lin, Sijie Li, Yan Cui, Daoliang Zhang, Chuangyi Han, Yida Li, Jianmin Li, Yi Chen Zhao, Rui Gao, Jiangning Song, Zhiyuan Yuan
NicheTrans translates single-omics data into spatial multi-omics insights by integrating spatial and multi-modal information, outperforming existing methods in disease and tissue analysis.
Nature Methods · Jul 9, 2026Peer-reviewedBioinformatics
Zhuo Li, Weiran Wu, Chuangyi Han, Yan Cui, Tian Lu, Rongqin Ke, Jian Ye Sun, Zhiyuan Yuan
SOFisher improves spatial omics experiment design by using reinforcement learning to guide FOV selection, outperforming conventional methods in capturing relevant biological features.
Nature Communications · May 25, 2026Peer-reviewedBioinformatics
Senlin Lin, Zhikang Wang, Yan Cui, Qi Zou, Chuangyi Han, Rui Yan, Zhidong Yang, Wei Zhang, Rui Gao, Jiangning Song, Michael Q. Zhang, Hanchuan Peng, Jintai Yu, Jianfeng Feng, Yi Zhao, Zhiyuan Yuan
SpatialZ generates dense 3D cell atlases from planar spatial transcriptomics data by reconstructing virtual slices, validated with real 3D data and enabling new spatial analyses.
Nature Methods · Dec 31, 2025Peer-reviewedBioinformatics