# Omni-Sleep: A Sleep Foundation Model via Hierarchical Contrastive Learning of CNS-ANS Dynamics

arXiv: https://arxiv.org/abs/2607.07720 · HTML: https://mlsanity.com/paper/2607.07720/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 11 of its 35 references that are in the map.
- First posted on arXiv 4 Jul 2026.

## Builds on (most cited first, 11 of 11)

- [Self-Supervised Learning from Images with a Joint-Embedding Predictive Architecture](https://mlsanity.com/paper/2301.08243/) (2023)
- [Large Brain Model for Learning Generic Representations with Tremendous EEG Data in BCI](https://mlsanity.com/paper/2405.18765/) (2024)
- [XSleepNet: Multi-View Sequential Model for Automatic Sleep Staging](https://mlsanity.com/paper/2007.05492/) (2020)
- [SleepTransformer: Automatic Sleep Staging with Interpretability and Uncertainty Quantification](https://mlsanity.com/paper/2105.11043/) (2021)
- [MAEEG: Masked Auto-encoder for EEG Representation Learning](https://mlsanity.com/paper/2211.02625/) (2022)
- [Omni-fMRI: A Universal Atlas-Free fMRI Foundation Model](https://mlsanity.com/paper/2601.23090/) (2026)
- [Brain-DiT: A Universal Multi-state fMRI Foundation Model with Metadata-Conditioned Pretraining](https://mlsanity.com/paper/2604.12683/) (2026)
- [CoRe-Sleep: A Multimodal Fusion Framework for Time Series Robust to Imperfect Modalities](https://mlsanity.com/paper/2304.06485/) (2023)
- [SLIM-Brain: A Data- and Training-Efficient Foundation Model for fMRI Data Analysis](https://mlsanity.com/paper/2512.21881/) (2025)
- [FlexiBrain: Resolution-Agnostic Voxel-Level Encoding for Native fMRI](https://mlsanity.com/paper/2606.11500/) (2026)
- [BrainWorld: A Structural-Prior-Conditioned Generative Model for Whole-Brain 4D fMRI Dynamics](https://mlsanity.com/paper/2606.17742/) (2026)

## Abstract (arXiv)

Sleep physiology arises from the coordinated dynamics of the central nervous system (CNS) and autonomic nervous system (ANS), as reflected by multimodal polysomnography signals including EEG, EOG, EMG, ECG, and respiration. However, existing sleep foundation models often fuse heterogeneous biosignals in a topology-agnostic manner, overlooking their physiological organization. We introduce Omni-Sleep, a sleep foundation model that uses the CNS/ANS partition as a physiological prior for topology-constrained representation learning. Omni-Sleep learns structured representations through three objectives: intra-system consistency, which captures shared subsystem-level factors within neural and cardio-respiratory signals; inter-system synchronization, which aligns subsystem trajectories to model brain--body dynamics; and latent-space masked temporal modeling, which captures long-horizon sleep dynamics. Pre-trained on over 100,000 hours of multi-center multimodal PSG data, Omni-Sleep is evaluated on sleep staging and multi-disease classification. Across datasets and modality-ablation settings, Omni-Sleep outperforms strong foundation-model baselines, showing improved label efficiency, cross-dataset generalization, and robustness to missing modalities. These results highlight the value of physiological hierarchy for generalizable sleep representation learning. Code is available at https://github.com/AutoBrain-sleep/OmniSleep.