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Daixian Liu

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AAAI Conference 2026 Conference Paper

Learning to Cluster Rare Cell Types: Implicit Semantic Data Augmentation for Spatial Multi-modal Omics Analysis

Daixian Liu
Hau-Sing So
Haoran Chen
Jiao Li
Shanshan Wang
Mengzhu Wang
Jingcai Guo

Spatial multi-modal omics technologies have transformed biological research by enabling the simultaneous profiling of gene expression, protein abundance, and chromatin accessibility within their native spatial contexts. Despite these advances, accurately clustering rare cell types remains a major challenge due to data sparsity, high dimensionality, and limited annotated samples. While Graph Neural Networks (GNNs) have shown potential in modeling spatial omics data, their effectiveness is often constrained by the use of fixed K-nearest neighbor (KNN) graph structures, which fail to capture latent semantic relationships masked by sequencing noise. To overcome these limitations, we propose CRCT (Clustering Rare Cell Types): a novel framework that combines Implicit Semantic Data Augmentation (ISDA) with adaptive graph learning for spatial multi-modal omics analysis. Unlike traditional augmentation strategies that generate explicit synthetic samples, CRCT operates in the deep feature space by dynamically estimating intra-class covariance matrices and implicitly perturbing features along semantically meaningful directions. This enables effective augmentation for rare cell populations while preserving biological fidelity. Extensive experiments across four real-world datasets (HLN, MB, Stereo‑CITE‑seq, and SPOTS) and one synthetic benchmark demonstrate the state-of-the-art performance of CRCT, achieving improvements of up to +1.7 NMI and +7.8 ARI over strong baseline methods.

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AAAI Conference 2024 Conference Paper

Sharpness-Aware Model-Agnostic Long-Tailed Domain Generalization

Houcheng Su
Weihao Luo
Daixian Liu
Mengzhu Wang
Jing Tang
Junyang Chen
Cong Wang
Zhenghan Chen

Domain Generalization (DG) aims to improve the generalization ability of models trained on a specific group of source domains, enabling them to perform well on new, unseen target domains. Recent studies have shown that methods that converge to smooth optima can enhance the generalization performance of supervised learning tasks such as classification. In this study, we examine the impact of smoothness-enhancing formulations on domain adversarial training, which combines task loss and adversarial loss objectives. Our approach leverages the fact that converging to a smooth minimum with respect to task loss can stabilize the task loss and lead to better performance on unseen domains. Furthermore, we recognize that the distribution of objects in the real world often follows a long-tailed class distribution, resulting in a mismatch between machine learning models and our expectations of their performance on all classes of datasets with long-tailed class distributions. To address this issue, we consider the domain generalization problem from the perspective of the long-tail distribution and propose using the maximum square loss to balance different classes which can improve model generalizability. Our method's effectiveness is demonstrated through comparisons with state-of-the-art methods on various domain generalization datasets. Code: https://github.com/bamboosir920/SAMALTDG.

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