Xinke Shen

Ziling Lu, Zongsheng Li, Xinke Shen et al.

Electroencephalography (EEG) supports a variety of brain-computer interface (BCI) tasks ranging from brain-state monitoring to human-LLM interactions. EEG foundation models are emerging, but evaluation remains fragmented due to heterogeneous datasets and nconsistent task protocols. Here, we introduce OmniEEG-Bench, a unified benchmark and downstream task roadmap for EEG foundation models (FMs). It organizes evaluation of EEG FMs into six task families spanning (i) signal reliability, (ii) biometrics and disease, (iii) consciousness and state, (iv) cognition and emotion, (v) naturalistic stimulus decoding, and (vi) motor and interaction, introducing a new generation of tasks not systematically benchmarked in prior EEG FM work. OmniEEG-Bench standardizes model deployment, task definitions, and metrics through a task-card specification, and unifies 54 EEG datasets with consistent evaluation protocols. We benchmark 10 representative EEG foundation models and report a leaderboard that covers diverse evaluation settings. Both pretraining dataset diversity and model size are significantly associated with better average ranks across datasets, revealing scaling-law behavior in EEG foundation models (Figure 1). These results suggest that scaling EEG foundation models requires not only larger architectures but also broader and more diverse pretraining data. The benchmark code is available at https://github.com/ncclab-sustech/omni-eegbench.git.

Zhiyuan Ma, Zeyuan Li, Zihao Qiu et al.

In real-world applications of noninvasive electroencephalography (EEG), specialized decoders often show limited generalizability across diverse tasks under subject-independent settings. One central challenge is that task-relevant EEG signals often follow different temporal organization patterns across tasks, while many existing methods rely on task-tailored architectural designs that introduce task-specific temporal inductive biases. This mismatch makes it difficult to adapt temporal modeling across tasks without changing the model configuration. To address these challenges, we propose DSAINet, an efficient dual-scale attentive interaction network for general EEG decoding. Specifically, DSAINet constructs shared spatiotemporal token representations from raw EEG signals and models diverse temporal dynamics through parallel convolutional branches at fine and coarse scales. The resulting representations are then adaptively refined by intra-branch attention to emphasize salient scale-specific patterns and by inter-branch attention to integrate task-relevant features across scales, followed by adaptive token aggregation to yield a compact representation for prediction. Extensive experiments on five downstream EEG decoding tasks across ten public datasets show that DSAINet consistently outperforms 13 representative baselines under strict subject-independent evaluation. Notably, this performance is achieved using the same architecture hyperparameters across datasets. Moreover, DSAINet achieves a favorable accuracy-efficiency trade-off with only about 77K trainable parameters and provides interpretable neurophysiological insights. The code is publicly available at https://github.com/zy0929/DSAINet.

Junfeng Xia, Wenhao Ye, Xuanye Pan et al.

Current fMRI foundation models primarily rely on a limited range of brain states and mismatched pretraining tasks, restricting their ability to learn generalized representations across diverse brain states. We present \textit{Brain-DiT}, a universal multi-state fMRI foundation model pretrained on 349,898 sessions from 24 datasets spanning resting, task, naturalistic, disease, and sleep states. Unlike prior fMRI foundation models that rely on masked reconstruction in the raw-signal space or a latent space, \textit{Brain-DiT} adopts metadata-conditioned diffusion pretraining with a Diffusion Transformer (DiT), enabling the model to learn multi-scale representations that capture both fine-grained functional structure and global semantics. Across extensive evaluations and ablations on 7 downstream tasks, we find consistent evidence that diffusion-based generative pretraining is a stronger proxy than reconstruction or alignment, with metadata-conditioned pretraining further improving downstream performance by disentangling intrinsic neural dynamics from population-level variability. We also observe that downstream tasks exhibit distinct preferences for representational scale: ADNI classification benefits more from global semantic representations, whereas age/sex prediction comparatively relies more on fine-grained local structure. Code and parameters of Brain-DiT are available at \href{https://github.com/REDMAO4869/Brain-DiT}{Link}.

Peizhen Yang, Xinke Shen, Zongsheng Li et al.

Identifying causal relationships among distinct brain areas, known as effective connectivity, holds key insights into the brain's information processing and cognitive functions. Electroencephalogram (EEG) signals exhibit intricate dynamics and inter-areal interactions within the brain. However, methods for characterizing nonlinear causal interactions among multiple brain regions remain relatively underdeveloped. In this study, we proposed a data-driven framework to infer effective connectivity by perturbing the trained neural networks. Specifically, we trained neural networks (i.e., CNN, vanilla RNN, GRU, LSTM, and Transformer) to predict future EEG signals according to historical data and perturbed the networks' input to obtain effective connectivity (EC) between the perturbed EEG channel and the rest of the channels. The EC reflects the causal impact of perturbing one node on others. The performance was tested on the synthetic EEG generated by a biological-plausible Jansen-Rit model. CNN and Transformer obtained the best performance on both 3-channel and 90-channel synthetic EEG data, outperforming the classical Granger causality method. Our work demonstrated the potential of perturbing an artificial neural network, learned to predict future system dynamics, to uncover the underlying causal structure.

Yuntian Cui, Xinke Shen, Dan Zhang et al.

ERP-based EEG detection is gaining increasing attention in the field of brain-computer interfaces. However, due to the complexity of ERP signal components, their low signal-to-noise ratio, and significant inter-subject variability, cross-subject ERP signal detection has been challenging. The continuous advancement in deep learning has greatly contributed to addressing this issue. This brief proposes a contrastive learning training framework and an Inception module to extract multi-scale temporal and spatial features, representing the subject-invariant components of ERP signals. Specifically, a base encoder integrated with a linear Inception module and a nonlinear projector is used to project the raw data into latent space. By maximizing signal similarity under different targets, the inter-subject EEG signal differences in latent space are minimized. The extracted spatiotemporal features are then used for ERP target detection. The proposed algorithm achieved the best AUC performance in single-trial binary classification tasks on the P300 dataset and showed significant optimization in speller decoding tasks compared to existing algorithms.

Qingzhu Zhang, Jiani Zhong, Zongsheng Li et al.

Task-specific pre-training is essential when task representations diverge from generic pre-training features. Existing task-general pre-training EEG models struggle with complex tasks like emotion recognition due to mismatches between task-specific features and broad pre-training approaches. This work aims to develop a task-specific multi-dataset joint pre-training framework for cross-dataset emotion recognition, tackling problems of large inter-dataset distribution shifts, inconsistent emotion category definitions, and substantial inter-subject variability. We introduce a cross-dataset covariance alignment loss to align second-order statistical properties across datasets, enabling robust generalization without the need for extensive labels or per-subject calibration. To capture the long-term dependency and complex dynamics of EEG, we propose a hybrid encoder combining a Mamba-like linear attention channel encoder and a spatiotemporal dynamics model. Our method outperforms state-of-the-art large-scale EEG models by an average of 4.57% in AUROC for few-shot emotion recognition and 11.92% in accuracy for zero-shot generalization to a new dataset. Performance scales with the increase of datasets used in pre-training. Multi-dataset joint pre-training achieves a performance gain of 8.55% over single-dataset training. This work provides a scalable framework for task-specific pre-training and highlights its benefit in generalizable affective computing. Our code is available at https://github.com/ncclab-sustech/mdJPT_nips2025.

Xinke Shen, Lingyi Tao, Xuyang Chen et al.

Neural representations induced by naturalistic stimuli offer insights into how humans respond to stimuli in daily life. Understanding neural mechanisms underlying naturalistic stimuli processing hinges on the precise identification and extraction of the shared neural patterns that are consistently present across individuals. Targeting the Electroencephalogram (EEG) technique, known for its rich spatial and temporal information, this study presents a framework for Contrastive Learning of Shared SpatioTemporal EEG Representations across individuals (CL-SSTER). CL-SSTER utilizes contrastive learning to maximize the similarity of EEG representations across individuals for identical stimuli, contrasting with those for varied stimuli. The network employed spatial and temporal convolutions to simultaneously learn the spatial and temporal patterns inherent in EEG. The versatility of CL-SSTER was demonstrated on three EEG datasets, including a synthetic dataset, a natural speech comprehension EEG dataset, and an emotional video watching EEG dataset. CL-SSTER attained the highest inter-subject correlation (ISC) values compared to the state-of-the-art ISC methods. The latent representations generated by CL-SSTER exhibited reliable spatiotemporal EEG patterns, which can be explained by properties of the naturalistic stimuli. CL-SSTER serves as an interpretable and scalable framework for the identification of inter-subject shared neural representations in naturalistic neuroscience.

Chenghao Yue, Zhiyuan Ma, Zhongye Xia et al.

Electroencephalography (EEG) provides a non-invasive window into brain activity, offering high temporal resolution crucial for understanding and interacting with neural processes through brain-computer interfaces (BCIs). Current dual-stream neural networks for EEG often process temporal and spatial features independently through parallel branches, delaying their integration until a final, late-stage fusion. This design inherently leads to an "information silo" problem, precluding intermediate cross-stream refinement and hindering spatial-temporal decompositions essential for full feature utilization. We propose LI-DSN, a layer-wise interactive dual-stream network that facilitates progressive, cross-stream communication at each layer, thereby overcoming the limitations of late-fusion paradigms. LI-DSN introduces a novel Temporal-Spatial Integration Attention (TSIA) mechanism, which constructs a Spatial Affinity Correlation Matrix (SACM) to capture inter-electrode spatial structural relationships and a Temporal Channel Aggregation Matrix (TCAM) to integrate cosine-gated temporal dynamics under spatial guidance. Furthermore, we employ an adaptive fusion strategy with learnable channel weights to optimize the integration of dual-stream features. Extensive experiments across eight diverse EEG datasets, encompassing motor imagery (MI) classification, emotion recognition, and steady-state visual evoked potentials (SSVEP), consistently demonstrate that LI-DSN significantly outperforms 13 state-of-the-art (SOTA) baseline models, showcasing its superior robustness and decoding performance. The code will be publicized after acceptance.

Xinke Shen, Xianggen Liu, Xin Hu et al.

EEG signals have been reported to be informative and reliable for emotion recognition in recent years. However, the inter-subject variability of emotion-related EEG signals still poses a great challenge for the practical applications of EEG-based emotion recognition. Inspired by recent neuroscience studies on inter-subject correlation, we proposed a Contrastive Learning method for Inter-Subject Alignment (CLISA) to tackle the cross-subject emotion recognition problem. Contrastive learning was employed to minimize the inter-subject differences by maximizing the similarity in EEG signal representations across subjects when they received the same emotional stimuli in contrast to different ones. Specifically, a convolutional neural network was applied to learn inter-subject aligned spatiotemporal representations from EEG time series in contrastive learning. The aligned representations were subsequently used to extract differential entropy features for emotion classification. CLISA achieved state-of-the-art cross-subject emotion recognition performance on our THU-EP dataset with 80 subjects and the publicly available SEED dataset with 15 subjects. It could generalize to unseen subjects or unseen emotional stimuli in testing. Furthermore, the spatiotemporal representations learned by CLISA could provide insights into the neural mechanisms of human emotion processing.