Yuanyi Ding

Chenda Duan, Yipeng Zhang, Sotaro Kanai et al.

Epilepsy affects over 50 million people worldwide, and one-third of patients suffer drug-resistant seizures where surgery offers the best chance of seizure freedom. Accurate localization of the epileptogenic zone (EZ) relies on intracranial EEG (iEEG). Clinical workflows, however, remain constrained by labor-intensive manual review. At the same time, existing data-driven approaches are typically developed on single-center datasets that are inconsistent in format and metadata, lack standardized benchmarks, and rarely release pathological event annotations, creating barriers to reproducibility, cross-center validation, and clinical relevance. With extensive efforts to reconcile heterogeneous iEEG formats, metadata, and recordings across publicly available sources, we present $\textbf{Omni-iEEG}$, a large-scale, pre-surgical iEEG resource comprising $\textbf{302 patients}$ and $\textbf{178 hours}$ of high-resolution recordings. The dataset includes harmonized clinical metadata such as seizure onset zones, resections, and surgical outcomes, all validated by board-certified epileptologists. In addition, Omni-iEEG provides over 36K expert-validated annotations of pathological events, enabling robust biomarker studies. Omni-iEEG serves as a bridge between machine learning and epilepsy research. It defines clinically meaningful tasks with unified evaluation metrics grounded in clinical priors, enabling systematic evaluation of models in clinically relevant settings. Beyond benchmarking, we demonstrate the potential of end-to-end modeling on long iEEG segments and highlight the transferability of representations pretrained on non-neurophysiological domains. Together, these contributions establish Omni-iEEG as a foundation for reproducible, generalizable, and clinically translatable epilepsy research. The project page with dataset and code links is available at omni-ieeg.github.io/omni-ieeg.

Yipeng Zhang, Yuanyi Ding, Chenda Duan et al.

High-frequency oscillations (HFOs) in intracranial Electroencephalography (iEEG) are critical biomarkers for localizing the epileptogenic zone in epilepsy treatment. However, traditional rule-based detectors for HFOs suffer from unsatisfactory precision, producing false positives that require time-consuming manual review. Supervised machine learning approaches have been used to classify the detection results, yet they typically depend on labeled datasets, which are difficult to acquire due to the need for specialized expertise. Moreover, accurate labeling of HFOs is challenging due to low inter-rater reliability and inconsistent annotation practices across institutions. The lack of a clear consensus on what constitutes a pathological HFO further challenges supervised refinement approaches. To address this, we leverage the insight that legacy detectors reliably capture clinically relevant signals despite their relatively high false positive rates. We thus propose the Self-Supervised to Label Discovery (SS2LD) framework to refine the large set of candidate events generated by legacy detectors into a precise set of pathological HFOs. SS2LD employs a variational autoencoder (VAE) for morphological pre-training to learn meaningful latent representation of the detected events. These representations are clustered to derive weak supervision for pathological events. A classifier then uses this supervision to refine detection boundaries, trained on real and VAE-augmented data. Evaluated on large multi-institutional interictal iEEG datasets, SS2LD outperforms state-of-the-art methods. SS2LD offers a scalable, label-efficient, and clinically effective strategy to identify pathological HFOs using legacy detectors.

Liang Qiu, Yuanyi Ding, Lei He

In recent years, Recurrent Neural Networks (RNNs) based models have been applied to the Slot Filling problem of Spoken Language Understanding and achieved the state-of-the-art performances. In this paper, we investigate the effect of incorporating pre-trained language models into RNN based Slot Filling models. Our evaluation on the Airline Travel Information System (ATIS) data corpus shows that we can significantly reduce the size of labeled training data and achieve the same level of Slot Filling performance by incorporating extra word embedding and language model embedding layers pre-trained on unlabeled corpora.