Publications

^*: equal contribution

Journal Articles

• Kaichen Xu^*, Yan Lu, Suyang Hou, Kainan Liu, Yihang Du, Mengqian Huang, Hao Feng, Hao Wu, and Xiaobo Sun^*. Detecting anomalous anatomic regions in spatial transcriptomics with STANDS. Nature Communications, 2024.

• Kaichen Xu^*, Kainan Liu^*, Linjie Wang, Yueyang Ding, Yan Lu, Hao Wu, and Xiaobo Sun. An Integrated Approach for Detecting and Subtyping Anomalous Single Cells across Samples and Modalities. Genomics Proteomics Bioinformatics, 2025.

• Tao Deng^*, Mengqian Huang, Kaichen Xu, Yan Lu, Yucheng Xu, Shiyu Chen, Nina Xie, Hao Wu, and Xiaobo Sun^*. LEGEND: An Integrative Algorithm for Identifying Co-expressed and Cofunctional Genes in Multimodal Transcriptomic Sequencing Data. Genomics Proteomics Bioinformatics, 2025.

Conference Papers

• Kaichen Xu, Yihang Du, Mianpeng Liu, Zimu Yu, and Xiaobo Sun. Causality-Induced Positional Encoding for Transformer-Based Representation Learning of Non-Sequential Features. In Proceedings of the Annual Conference on Neural Information Processing Systems., 2025.

• Kaichen Xu^*, Qilong Wu^*, Yan Lu, Yinan Zheng, Jun Wang, and Xiaobo Sun. Multimodal Anomalous Tissue Region Detection Enhanced with Spatial Transcriptomics. In Proceedings of the AAAI Conference on Artificial Intelligence, 2025.

• Kaichen Xu^*, Kainan Liu^*, Linjie Wang, Yueyang Ding, Yan Lu, Hao Wu, and Xiaobo Sun. Detecting and Subtyping Anomalous Single Cells with M2ASDA. In Proceedings of the ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, 2024.

• Kaichen Xu^*, Yueyang Ding^*, Suyang Hou, Weiqiang Zhan, Nisang Chen, Jun Wang, and Xiaobo Sun. Domain Adaptive and Fine-grained Anomaly Detection for Single-cell Sequencing Data and Beyond. In Proceedings of the International Joint Conference on Artificial Intelligence, 2024.