arXiv AI By Junbo Shen, Jinying Gao, Bo Lei

Language as the Interface: Foundation-Model Contrastive Learning Links Transcriptomes and Electrophysiology

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arXiv Machine Learning
Jun 18

Contextualizing Biological Language Models across Modalities via Logit-Space Contrastive Alignment

arXiv:2606. 18703v1 Announce Type: new Abstract: Pretrained biological language models expose per-token probability distributions through masked-token prediction, providing the likelihood interface central to sequence design, variant scoring, and mechanistic interpretation.

By Yanjun Shao, Yundi Chen, Yashvi Patel, Aurelien Pelissier, Mar\'ia Rodr\'iguez Mart\'inez
arXiv AI
6d ago

Neural State Prediction: Obstructing Shortcut Learning in EEG Foundation Models

Neural State Prediction (NSP) is a latent‑predictive framework designed to curb shortcut learning in EEG foundation models. By using a target encoder updated with an exponential moving average, identity residualization, and topology‑separated context, NSP constrains both the prediction target and the available context. Trained on 2.2 million EEG segments, NSP outperforms baselines on 14 datasets in the EEG‑FM‑Bench, achieving 63.94 % macro balanced accuracy.

By Kieren Yu, Ziyang Liu, Chang Huang, Jintai Chen, Kaishun Wu