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Pathology plays an important role in disease diagnosis, treatment decision-making and drug development. Previous works on interpretability for machine learning models on pathology images have revolved around methods such as attention value…

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

Sparse autoencoders (SAEs) have been applied to large language models and protein language models, but not systematically to electronic health record (EHR) foundation models. We train TopK SAEs on FlatASCEND, a 14.5-million-parameter…

Machine Learning · Computer Science 2026-05-07 Chris Sainsbury , Feng Dong , Andreas Karwath

Sparse autoencoders (SAEs) have emerged as a promising approach in language model interpretability, offering unsupervised extraction of sparse features. For interpretability methods to succeed, they must identify abstract features across…

Machine Learning · Computer Science 2025-09-08 Lovis Heindrich , Philip Torr , Fazl Barez , Veronika Thost

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

Motivated by the hypothesis that neural network representations encode abstract, interpretable features as linearly accessible, approximately orthogonal directions, sparse autoencoders (SAEs) have become a popular tool in interpretability.…

Machine Learning · Computer Science 2025-11-05 Valérie Costa , Thomas Fel , Ekdeep Singh Lubana , Bahareh Tolooshams , Demba Ba

RFdiffusion is a popular and well-established model for generation of protein structures. However, this generative process offers limited insight into its internal representations and how they contribute to the final protein structure.…

Quantitative Methods · Quantitative Biology 2025-12-01 Wojciech Zarzecki , Paulina Szymczak , Ewa Szczurek , Kamil Deja

In this paper we propose Structuring AutoEncoders (SAE). SAEs are neural networks which learn a low dimensional representation of data which are additionally enriched with a desired structure in this low dimensional space. While traditional…

Machine Learning · Computer Science 2019-08-20 Marco Rudolph , Bastian Wandt , Bodo Rosenhahn

Vision foundation models (FMs) achieve state-of-the-art performance in medical imaging. However, they encode information in abstract latent representations that clinicians cannot interrogate or verify. The goal of this study is to…

Computer Vision and Pattern Recognition · Computer Science 2026-03-26 Philipp Wesp , Robbie Holland , Vasiliki Sideri-Lampretsa , Sergios Gatidis

The ability of large language models (LLMs) to follow instructions is crucial for their practical applications, yet the underlying mechanisms remain poorly understood. This paper presents a novel framework that leverages sparse autoencoders…

Machine Learning · Computer Science 2025-02-18 Zirui He , Haiyan Zhao , Yiran Qiao , Fan Yang , Ali Payani , Jing Ma , Mengnan Du

Steering vectors are a promising approach to control the behaviour of large language models. However, their underlying mechanisms remain poorly understood. While sparse autoencoders (SAEs) may offer a potential method to interpret steering…

Machine Learning · Computer Science 2024-11-14 Harry Mayne , Yushi Yang , Adam Mahdi

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

Sparse Autoencoders (SAEs) are a powerful dictionary learning technique for decomposing neural network activations, translating the hidden state into human ideas with high semantic value despite no external intervention or guidance.…

Machine Learning · Computer Science 2025-12-17 Albert Miao , Chenliang Zhou , Jiawei Zhou , Cengiz Oztireli

Sparse autoencoders (SAEs) have emerged as a powerful tool for interpreting large language models (LLMs) by decomposing token activations into combinations of human-understandable features. While SAEs provide crucial insights into LLM…

Machine Learning · Computer Science 2025-11-11 Zhen Xu , Zhen Tan , Song Wang , Kaidi Xu , Tianlong Chen

Recent work shows that Sparse Autoencoders (SAE) applied to large language model (LLM) layers have neurons corresponding to interpretable concepts. These SAE neurons can be modified to align generated outputs, but only towards…

Computation and Language · Computer Science 2025-07-01 Ananya Joshi , Celia Cintas , Skyler Speakman

While the activations of neurons in deep neural networks usually do not have a simple human-understandable interpretation, sparse autoencoders (SAEs) can be used to transform these activations into a higher-dimensional latent space which…

Machine Learning · Computer Science 2025-08-07 Gonçalo Paulo , Alex Mallen , Caden Juang , Nora Belrose

We introduce sparse autoencoder neural operators (SAE-NOs), a new class of sparse autoencoders that operate in function spaces rather than fixed-dimensional Euclidean representations. We formalize the functional representation hypothesis,…

Machine Learning · Computer Science 2026-05-11 Bahareh Tolooshams , Ailsa Shen , Anima Anandkumar

Sparse autoencoders (SAEs) are useful for detecting and steering interpretable features in neural networks, with particular potential for understanding complex multimodal representations. Given their ability to uncover interpretable…

Computer Vision and Pattern Recognition · Computer Science 2025-05-29 Vladimir Zaigrajew , Hubert Baniecki , Przemyslaw Biecek

Sparse autoencoders (SAEs) are widely used in mechanistic interpretability to project LLM activations onto sparse latent spaces. However, sparsity alone is an imperfect proxy for interpretability, and current training objectives often…

Machine Learning · Computer Science 2026-04-09 Vivek Narayanaswamy , Kowshik Thopalli , Bhavya Kailkhura , Wesam Sakla

Popularity bias is a well-known challenge in recommender systems, where a small number of popular items receive disproportionate attention, while the majority of less popular items are largely overlooked. This imbalance often results in…

Information Retrieval · Computer Science 2025-08-26 Parviz Ahmadov , Masoud Mansoury