CoCoT-EEG: Contrastive-Pretrained Multiscale Convolutional Transformer for EEG Decoding

EEG foundation models can learn generalizable representations from large-scale EEG corpora to enable single-backbone transfer across diverse clinical and brain-computer interface tasks. Existing models typically discretize the continuous multi-channel EEG waveform into patches or codebook tokens and train a transformer with masked self-supervision. Recognizing that this discretization fragments continuous brain rhythms and obscures fine-grained temporal dynamics, we present B[FM]$^2$(Brain Foundation Model via Flow Matching), whose inductive bias aligns with the data by pretraining directly on the raw signal using continuous-time flow matching without patches, tokenization, or masking. However, multi-channel EEG signals pose an architectural challenge for flow matching: time is densely sampled and highly autocorrelated (thousands of timepoints), while the electrode axis is short (tens of channels) at distinct scalp positions. To address this time-electrode asymmetry, we introduce SplitUNet, a velocity network that factorizes each block into separate 1D temporal and 1D electrode convolutions and downsamples only along time, preserving electrode topology throughout the hierarchy. B[FM]$^2$ sets a new state of the art on 7 of 9 standard downstream EEG classification tasks, using a pretraining budget of only 36,895 segments ($\approx$ 307h), 1-2 orders of magnitude ($\approx$ 30x) less than required by existing EEG foundation models. Further, it generates synthetic EEGs that two board-certified neurologists cannot distinguish from brain data (Cohen's $κ=$ -0.096). https://jd730.github.io/projects/BFM2

Intracranial electrocorticography (ECoG) offers high-signal-to-noise access to cortical activity for brain-computer interfaces, yet limited per-patient data has led most prior work to rely on small, subject-specific decoders that neglect information shared across patients. We investigate whether large pretrained scalp-EEG foundation models (EEG FMs) can be adapted to ECoG, enabling cross-patient learning and competitive decoding performance while calibrating to a held-out patient in 10-30 minutes on a single GPU. We introduce CORTEG, a cross-modality transfer framework that combines a pretrained EEG FM backbone, an electrode-aware KNNSoftFourier spatial adapter, a dual-stream tokenizer for low-frequency and high-gamma activity, and a leave-one-subject-out fine-tuning strategy. We evaluate CORTEG on two challenging regression tasks: public finger trajectory regression (n=9) and private audio envelope regression (n=16). CORTEG matches or exceeds the strongest task-specific baselines on both tasks: it reaches the highest mean correlation among compared methods on the public finger benchmark (gain not statistically significant on n=9 subjects), with larger and statistically significant gains on the audio task and in low-data per-patient calibration. Feature analyses align with neurophysiology, and latent manifolds capture low-dimensional finger-movement structure. CORTEG provides systematic evidence that scalp-EEG pretraining can be repurposed for ECoG decoding, enabling data-efficient intracranial BCIs that can adapt to new patients.

Self-supervised foundation models have recently shown strong potential for electroencephalogram (EEG)-based analysis. However, existing approaches struggle to capture the inherently multi-scale temporal structure of EEG signals, where local neural patterns and long-range dependencies jointly encode task-relevant information. This limitation hampers cross-scale representation learning and generalization across diverse downstream tasks. To address this challenge, we propose MSBraM, a Multi-Scale self-supervised Brain foundation Model designed to learn hierarchical EEG representations. MSBraM follows a two-stage pretraining framework. First, a multi-scale neural tokenizer discretizes raw EEG signals into semantic codes at different temporal resolutions via vector-quantized reconstruction. Second, the model is pretrained to predict masked codes using a curriculum multi-scale masking strategy, progressively integrating fine-grained local patterns with global temporal context. We pretrain MSBraM on over 2,400 hours of EEG data and evaluate it across 10 downstream tasks on 12 public datasets. Extensive experiments show that MSBraM achieves superior performance on other state-of-the-art pretrained models, demonstrating strong generalization and transferability. These results indicate that explicitly modeling multi-scale temporal dynamics is critical for effective EEG foundation models.