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Dense embeddings deliver strong retrieval performance but often lack interpretability and controllability. This paper introduces a novel approach using sparse autoencoders (SAE) to interpret and control dense embeddings via the learned…

Information Retrieval · Computer Science 2025-02-25 Hao Kang , Tevin Wang , Chenyan Xiong

Interpretability is critical in high-stakes domains such as medical imaging, where understanding model decisions is essential for clinical adoption. In this work, we introduce Sparse Autoencoder (SAE)-based interpretability to breast…

Computer Vision and Pattern Recognition · Computer Science 2025-08-19 Krishna Kanth Nakka

Identifying the features learned by neural networks is a core challenge in mechanistic interpretability. Sparse autoencoders (SAEs), which learn a sparse, overcomplete dictionary that reconstructs a network's internal activations, have been…

Machine Learning · Computer Science 2024-05-27 Dan Braun , Jordan Taylor , Nicholas Goldowsky-Dill , Lee Sharkey

In-context learning, the ability to adapt based on a few examples in the input prompt, is a ubiquitous feature of large language models (LLMs). However, as LLMs' in-context learning abilities continue to improve, understanding this…

Machine Learning · Computer Science 2024-10-03 Can Demircan , Tankred Saanum , Akshay K. Jagadish , Marcel Binz , Eric Schulz

Sparse autoencoders (SAEs) are used to decompose neural network activations into sparsely activating features, but many SAE features are only interpretable at high activation strengths. To address this issue we propose to use binary sparse…

Machine Learning · Computer Science 2025-10-01 Lucia Quirke , Stepan Shabalin , Nora Belrose

While sparse autoencoders (SAEs) successfully extract interpretable features from language models, applying them to audio generation faces unique challenges: audio's dense nature requires compression that obscures semantic meaning, and…

Machine Learning · Computer Science 2025-10-31 Nathan Paek , Yongyi Zang , Qihui Yang , Randal Leistikow

Large language models (LLMs) are increasingly trained in complex Reinforcement Learning, multi-agent environments, making it difficult to understand how behavior changes over training. Sparse Autoencoders (SAEs) have recently shown to be…

Machine Learning · Computer Science 2026-02-09 John Yan , Michael Yu , Yuqi Sun , Alexander Duffy , Tyler Marques , Matthew Lyle Olson

Scientific archives now contain hundreds of petabytes of data across genomics, ecology, climate, and molecular biology that could reveal undiscovered patterns if systematically analyzed at scale. Large-scale, weakly-supervised datasets in…

Computer Vision and Pattern Recognition · Computer Science 2025-11-25 Samuel Stevens , Jacob Beattie , Tanya Berger-Wolf , Yu Su

Sparse autoencoders (SAEs) are used to analyze embeddings, but their role and practical value are debated. We propose a new perspective on SAEs by demonstrating that they can be naturally understood as topic models. We propose a continuous…

Computer Vision and Pattern Recognition · Computer Science 2026-05-19 Leander Girrbach , Zeynep Akata

Sparse Autoencoders (SAEs) have recently emerged as powerful tools for interpreting and steering the internal representations of large language models (LLMs). However, conventional approaches to analyzing SAEs typically rely solely on…

Machine Learning · Computer Science 2025-09-24 Dong Shu , Xuansheng Wu , Haiyan Zhao , Mengnan Du , Ninghao Liu

Deep learning, particularly with the advancement of Large Language Models, has transformed biomolecular modeling, with protein language models such as ESM inspiring emerging RNA language models such as RiNALMo. Recent work has begun…

Biomolecules · Quantitative Biology 2026-05-18 Taehan Kim , Sangdae Nam

A recent line of work has shown promise in using sparse autoencoders (SAEs) to uncover interpretable features in neural network representations. However, the simple linear-nonlinear encoding mechanism in SAEs limits their ability to perform…

Machine Learning · Computer Science 2025-01-31 Charles O'Neill , Alim Gumran , David Klindt

Sparse autoencoders (SAEs) have emerged as a powerful technique for decomposing language model representations into interpretable features. Current interpretation methods infer feature semantics from activation patterns, but overlook that…

Machine Learning · Computer Science 2026-02-02 Yiting Liu , Zhi-Hong Deng

The Universality Hypothesis in large language models (LLMs) claims that different models converge towards similar concept representations in their latent spaces. Providing evidence for this hypothesis would enable researchers to exploit…

Machine Learning · Computer Science 2025-05-22 Michael Lan , Philip Torr , Austin Meek , Ashkan Khakzar , David Krueger , Fazl Barez

Sparse Autoencoders (SAEs) are a prominent tool in mechanistic interpretability (MI) for decomposing neural network activations into interpretable features. However, the aspiration to identify a canonical set of features is challenged by…

Machine Learning · Computer Science 2025-05-27 Xiangchen Song , Aashiq Muhamed , Yujia Zheng , Lingjing Kong , Zeyu Tang , Mona T. Diab , Virginia Smith , Kun Zhang

Sparse autoencoders are a promising new approach for decomposing language model activations for interpretation and control. They have been applied successfully to vision transformer image encoders and to small-scale diffusion models.…

Machine Learning · Computer Science 2025-07-14 Stepan Shabalin , Ayush Panda , Dmitrii Kharlapenko , Abdur Raheem Ali , Yixiong Hao , Arthur Conmy

Sparse autoencoders (SAEs) are widely used to extract sparse, interpretable latents from transformer activations. We test whether commonly used SAE quality metrics and automatic explanation pipelines can distinguish trained transformers…

Machine Learning · Computer Science 2026-01-28 Thomas Heap , Tim Lawson , Lucy Farnik , Laurence Aitchison

Sparse autoencoders (SAEs) are a popular tool for interpreting large language model activations, but their utility in addressing open questions in interpretability remains unclear. In this work, we demonstrate their effectiveness by using…

Machine Learning · Computer Science 2025-04-21 Dmitrii Kharlapenko , Stepan Shabalin , Fazl Barez , Arthur Conmy , Neel Nanda

Sparse autoencoders (SAEs) are used to disentangle the dense, polysemantic internal representations of large language models (LLMs) into interpretable, monosemantic concepts. However, standard $\ell_1$-regularized SAEs suffer from feature…

Machine Learning · Computer Science 2026-05-08 Faris Chaudhry , Keisuke Yano , Anthea Monod

Adapting foundation models for specific purposes has become a standard approach to build machine learning systems for downstream applications. Yet, it is an open question which mechanisms take place during adaptation. Here we develop a new…

Computer Vision and Pattern Recognition · Computer Science 2025-03-24 Hyesu Lim , Jinho Choi , Jaegul Choo , Steffen Schneider
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