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Neural networks (NN) has been adopted by brain-computer interfaces (BCI) to encode brain signals acquired using electroencephalography (EEG) and functional near-infrared spectroscopy (fNIRS). However, it has been found that NN models are vulnerable to adversarial examples, i.e., corrupted samples with imperceptible noise. Once attacked, it could impact medical diagnosis and patients’ quality of life. While early work focuses on interference using external devices at the time of signal acquisition, recent research shifts to collected signals, features, and learning models under various attack modes (e.g., white-, grey-, and black-box). However, existing work only considers single-modality attacks and ignores the topological relationships among different observations, e.g., samples having strong similarities. Different from previous approaches, we introduce graph neural networks (GNN) to multimodal BCI-based classification and explore its performance and robustness against adversarial attacks. This study will evaluate the robustness of NN models with and without graph knowledge on both single and multimodal data.