PhenoBrain: Phenotype-Conditioned Long-Range Communication for Multi-Modal Brain Network Analysis

Multi-modal brain network analysis aims to predict neuropsychiatric status from functional connectomes with heterogeneous phenotypes. However, most existing methods treat phenotypes as auxiliary features and perform late fusion, implicitly assuming that the connectome representation should be learned in the same way regardless of phenotype. However, in clinical neuroscience the same functional connectivity pattern may support different conclusions under different phenotype contexts. To bridge this gap, we propose PhenoBrain, a novel framework for multi-modal brain network analysis that injects phenotype information at the mechanism level rather than only at the classifier level. Specifically, we propose a phenotype-conditioned long-range routing mechanism, which learns a subject-specific multi-hop communication kernel to model long-range connectome interactions. Furthermore, we propose a phenotypic-guided attention mechanism regulation method, which uses phenotypic information as a conditional prior to regulate the learning process of attention in brain networks. To verify the effectiveness of our method, we constructed two multi-modal brain network analysis datasets based on open-source image data. Extensive experiments demonstrate that PhenoBrain achieves state-of-the-art performance.