# MUSE: Resolving Manifold Misalignment in Visual Tokenization via Topological Orthogonality

arXiv: https://arxiv.org/abs/2605.05646 · HTML: https://mlsanity.com/paper/2605.05646/

## Key facts

- Cited by 3 papers in the map (data through 14 Oct 2026).
- Builds on 67 of its 81 references that are in the map.
- First posted on arXiv 7 May 2026.

## Builds on (most cited first, 30 of 67)

- [Learning Transferable Visual Models From Natural Language Supervision](https://mlsanity.com/paper/2103.00020/) (2021)
- [Masked Autoencoders Are Scalable Vision Learners](https://mlsanity.com/paper/2111.06377/) (2021)
- [Emerging Properties in Self-Supervised Vision Transformers](https://mlsanity.com/paper/2104.14294/) (2021)
- [A Style-Based Generator Architecture for Generative Adversarial Networks](https://mlsanity.com/paper/1812.04948/) (2018)
- [Qwen2.5-VL Technical Report](https://mlsanity.com/paper/2502.13923/) (2025)
- [Neural Discrete Representation Learning](https://mlsanity.com/paper/1711.00937/) (2017)
- [GPT-4o System Card](https://mlsanity.com/paper/2410.21276/) (2024)
- [Taming Transformers for High-Resolution Image Synthesis](https://mlsanity.com/paper/2012.09841/) (2020)
- [Sigmoid Loss for Language Image Pre-Training](https://mlsanity.com/paper/2303.15343/) (2023)
- [BEiT: BERT Pre-Training of Image Transformers](https://mlsanity.com/paper/2106.08254/) (2021)
- [InternVL3: Exploring Advanced Training and Test-Time Recipes for Open-Source Multimodal Models](https://mlsanity.com/paper/2504.10479/) (2025)
- [Align before Fuse: Vision and Language Representation Learning with Momentum Distillation](https://mlsanity.com/paper/2107.07651/) (2021)
- [DINOv3](https://mlsanity.com/paper/2508.10104/) (2025)
- [Conceptual 12M: Pushing Web-Scale Image-Text Pre-Training To Recognize Long-Tail Visual Concepts](https://mlsanity.com/paper/2102.08981/) (2021)
- [Visual Autoregressive Modeling: Scalable Image Generation via Next-Scale Prediction](https://mlsanity.com/paper/2404.02905/) (2024)
- [Chameleon: Mixed-Modal Early-Fusion Foundation Models](https://mlsanity.com/paper/2405.09818/) (2024)
- [Emerging Properties in Unified Multimodal Pretraining](https://mlsanity.com/paper/2505.14683/) (2025)
- [Janus-Pro: Unified Multimodal Understanding and Generation with Data and Model Scaling](https://mlsanity.com/paper/2501.17811/) (2025)
- [Emu3: Next-Token Prediction is All You Need](https://mlsanity.com/paper/2409.18869/) (2024)
- [Autoregressive Model Beats Diffusion: Llama for Scalable Image Generation](https://mlsanity.com/paper/2406.06525/) (2024)
- [Show-o: One Single Transformer to Unify Multimodal Understanding and Generation](https://mlsanity.com/paper/2408.12528/) (2024)
- [Eyes Wide Shut? Exploring the Visual Shortcomings of Multimodal LLMs](https://mlsanity.com/paper/2401.06209/) (2024)
- [Vector-quantized Image Modeling with Improved VQGAN](https://mlsanity.com/paper/2110.04627/) (2021)
- [Autoregressive Image Generation without Vector Quantization](https://mlsanity.com/paper/2406.11838/) (2024)
- [Transfusion: Predict the Next Token and Diffuse Images with One Multi-Modal Model](https://mlsanity.com/paper/2408.11039/) (2024)
- [Janus: Decoupling Visual Encoding for Unified Multimodal Understanding and Generation](https://mlsanity.com/paper/2410.13848/) (2024)
- [Finite Scalar Quantization: VQ-VAE Made Simple](https://mlsanity.com/paper/2309.15505/) (2023)
- [Reconstruction vs. Generation: Taming Optimization Dilemma in Latent Diffusion Models](https://mlsanity.com/paper/2501.01423/) (2025)
- [BLIP3-o: A Family of Fully Open Unified Multimodal Models-Architecture, Training and Dataset](https://mlsanity.com/paper/2505.09568/) (2025)
- [MAGVIT: Masked Generative Video Transformer](https://mlsanity.com/paper/2212.05199/) (2022)

## Built on by (most cited first, 3 of 3)

- [DiffuseAgent-MI: Distributionally-Grounded,Tool-Integrated Self-Evolving Agents for Faithful Visual Reasoning](https://mlsanity.com/paper/2608.00540/) (2026)
- [UniJEPA: A Unified Joint-Embedding Predictive Architecture for Task-Agnostic Visual World Modeling](https://mlsanity.com/paper/2608.07409/) (2026)
- [AWM-VLA: AlignedWorld Modeling for Efficient and Explainable Vision-Language-Action Policies](https://mlsanity.com/paper/2609.27753/) (2026)

## Abstract (arXiv)

Unified visual tokenization faces a fundamental trade-off between high-fidelity pixel reconstruction (spatial equivariance) and semantic abstraction (conceptual invariance). We attribute this conflict to Manifold Misalignment: naive joint optimization induces opposing gradients, creating a zero-sum game between reconstruction and perception. To address this, we propose MUSE, a framework based on Topological Orthogonality. By treating Structure as an orthogonal bridge, MUSE decouples optimization within Transformers: structural gradients refine attention topology, while semantic gradients update feature values. This turns destructive interference into Mutual Reinforcement. Experiments show that MUSE breaks the trade-off, achieving state-of-the-art generation quality (gFID 3.08) and surpassing its teacher InternViT-300M in linear probing (85.2% vs. 82.5%), demonstrating that structurally aligned reconstruction can enhance semantic perception. Code is available at https://github.com/PanqiYang1/MUSE.