Enhanced multimodal MRI classification of schizophrenia through cross-attention graph neural networks

We propose TB-GCAN, a tri-branch cross-attention graph neural network for schizophrenia classification using multimodal MRI, including sMRI, fMRI, and DTI. Built on a multi-site dataset of 1191 samples from seven scanning sites, the model exploits atlas-defined one-to-one anatomical correspondence across modalities to enable node-level cross-attention during intermediate representation learning. In 7-site leave-one-site-out evaluation, TB-GCAN achieved 84.63% accuracy and outperformed GAT, GCN, CNN, SVM, and MMGNN in the tri-modal setting. Attention-based region ranking highlighted biologically plausible schizophrenia-related regions, and downstream analyses linked the learned imaging representations to PANSS dimensions and transcriptional programs. Unlike generic multimodal GNNs that learn cross-modal relations from data, TB-GCAN directly leverages atlas-aligned regional correspondence to perform anatomically constrained node-level interaction. These findings indicate that anatomically grounded node-level multimodal fusion can improve classification performance while preserving neurobiological interpretability, thereby providing a principled framework for multimodal schizophrenia classification and biomarker discovery.