PRISM: Exploring Heterogeneous Pretrained EEG Foundation Model Transfer to Clinical Differential Diagnosis
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Abstract (arXiv)
EEG foundation models are typically pretrained on narrow-source clinical archives and evaluated on benchmarks from the same ecosystem, leaving unclear whether representations encode neural physiology or recording-distribution artifacts. We introduce PRISM (Population Representative Invariant Signal Model), a masked autoencoder ablated along two axes -- pretraining population and downstream adaptation -- with architecture and preprocessing fixed. We compare a narrow-source EU/US corpus (TUH + PhysioNet) against a geographically diverse pool augmented with multi-center South Asian clinical recordings across multiple EEG systems. Three findings emerge. First, narrow-source pretraining yields stronger linear probes on distribution-matched benchmarks, while diverse pretraining produces more adaptable representations under fine-tuning -- a trade-off invisible under single-protocol evaluation. Trained on three source corpora, PRISM matches or outperforms REVE (92 datasets, 60,000+ hours) on the majority of tasks, demonstrating that targeted diversity can substitute for indiscriminate scale and that dataset count is a confounding variable in model comparison. Second, on a clinically challenging and previously untested task -- distinguishing epilepsy from diagnostic mimickers via interictal EEG -- the diverse checkpoint outperforms the narrow-source checkpoint by +12.3 pp balanced accuracy, the largest gap across all evaluations. Third, systematic inconsistencies between EEG-Bench and EEG-FM-Bench reverse model rankings on identical datasets by up to 24 pp; we identify six concrete sources including split construction, checkpoint selection, segment length, and normalization, showing these factors compound non-additively.
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References · 9
- 2021Masked Autoencoders Are Scalable Vision Learnerscited by 7,403
- 2018Confounding variables can degrade generalization performance of radiological deep learning modelscited by 379
- 2024Large Brain Model for Learning Generic Representations with Tremendous EEG Data in BCIcited by 327
- 2024CBraMod: A Criss-Cross Brain Foundation Model for EEG Decodingcited by 199
- 2020Inter-database validation of a deep learning approach for automatic sleep scoringcited by 38
- 2020Epileptic Seizures Detection Using Deep Learning Techniques: A Reviewcited by 32
- 2024Demographic Bias of Expert-Level Vision-Language Foundation Models in Medical Imagingcited by 24
- 2025EEG-FM-Bench: A Comprehensive Benchmark for the Systematic Evaluation and Diagnostic Analyses of EEG Foundation Modelscited by 23
- 2025EEG-Bench: A Benchmark for EEG Foundation Models in Clinical Applicationscited by 14
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- 2026Pretrained, Frozen, Still Leaking: Auditing Cross-Encoder Attribute Transfer in EEG Foundation Models
- 2026STEAM: A Spatio-TEmporal Alignment Mixture-of-Experts Model with Hierarchical Pre-training for EEG Decoding
- 2026Foundation Model Guided Dual-Branch Co-Adaptation for Source-Free EEG Decoding
- 2026SpecMoE: Spectral Mixture-of-Experts Foundation Model for Cross-Species EEG Decoding