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Sparse Autoencoders (SAEs) are widely used to interpret neural networks by identifying meaningful concepts from their representations. However, do SAEs truly uncover all concepts a model relies on, or are they inherently biased toward…

Machine Learning · Computer Science 2025-12-03 Sai Sumedh R. Hindupur , Ekdeep Singh Lubana , Thomas Fel , Demba Ba

Understanding how features evolve across layers in deep neural networks is a fundamental challenge in mechanistic interpretability, particularly due to polysemanticity and feature superposition. While Sparse Autoencoders (SAEs) have been…

Machine Learning · Computer Science 2025-03-04 Nikita Balagansky , Ian Maksimov , Daniil Gavrilov

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

Translating the internal representations and computations of models into concepts that humans can understand is a key goal of interpretability. While recent dictionary learning methods such as Sparse Autoencoders (SAEs) provide a promising…

Computation and Language · Computer Science 2026-02-27 Usha Bhalla , Alex Oesterling , Claudio Mayrink Verdun , Himabindu Lakkaraju , Flavio P. Calmon

We present neuron embeddings, a representation that can be used to tackle polysemanticity by identifying the distinct semantic behaviours in a neuron's characteristic dataset examples, making downstream manual or automatic interpretation…

Machine Learning · Computer Science 2024-11-14 Alex Foote

As large language models (LLMs) are increasingly deployed in real-world applications, the need to selectively remove unwanted knowledge while preserving model utility has become paramount. Recent work has explored sparse autoencoders (SAEs)…

Computation and Language · Computer Science 2026-04-28 Tomer Ashuach , Dana Arad , Aaron Mueller , Martin Tutek , Yonatan Belinkov

Sparse Autoencoders (SAEs) have emerged as a powerful tool for interpreting the internal representations of CLIP vision encoders, yet existing analyses largely focus on the semantic meaning of individual features. We introduce information…

Computer Vision and Pattern Recognition · Computer Science 2026-04-08 Yusung Ro , Jaehyun Choi , Junmo Kim

Sparse autoencoders (SAEs) interpret neural network representations by decomposing activations into sparse combinations of dictionary atoms. However, SAEs assume features combine additively through linear reconstruction, an assumption that…

Machine Learning · Computer Science 2026-05-26 Panagiotis Koromilas , Andreas D. Demou , James Oldfield , Yannis Panagakis , Mihalis Nicolaou

Protein language models (PLMs) have demonstrated remarkable success in protein modeling and design, yet their internal mechanisms for predicting structure and function remain poorly understood. Here we present a systematic approach to…

Biomolecules · Quantitative Biology 2024-12-18 Elana Simon , James Zou

Understanding the internal machinations of deep Transformer-based NLP models is more crucial than ever as these models see widespread use in various domains that affect the public at large, such as industry, academia, finance, health. While…

Computation and Language · Computer Science 2026-05-13 Dan Pluth , Zachary Nicholas Houghton , Yu Zhou , Vijay K. Gurbani

Transformer models have become state-of-the-art in decoding stimuli and behavior from neural activity, significantly advancing neuroscience research. Yet greater transparency in their decision-making processes would substantially enhance…

Quantitative Methods · Quantitative Biology 2025-06-18 Laurence Freeman , Philip Shamash , Vinam Arora , Caswell Barry , Tiago Branco , Eva Dyer

Sparse Autoencoders (SAEs) have been proposed as an unsupervised approach to learn a decomposition of a model's latent space. This enables useful applications such as steering - influencing the output of a model towards a desired concept -…

Machine Learning · Computer Science 2025-12-23 Dana Arad , Aaron Mueller , Yonatan Belinkov

Sparse autoencoders (SAEs) have recently emerged as a powerful tool for interpreting the internal representations of large language models (LLMs), revealing latent latent features with semantical meaning. This interpretability has also…

Other Quantitative Biology · Quantitative Biology 2025-07-11 Haoxiang Guan , Jiyan He , Jie Zhang

While sparse autoencoders (SAEs) have generated significant excitement, a series of negative results have added to skepticism about their usefulness. Here, we establish a conceptual distinction that reconciles competing narratives…

Machine Learning · Computer Science 2025-07-01 Kenny Peng , Rajiv Movva , Jon Kleinberg , Emma Pierson , Nikhil Garg

Sparse autoencoders (SAEs) have become a central tool for interpreting language models. However, two key SAE analyses that remain difficult to scale are (1) matching semantically similar features across multi-layers and (2) compressing…

Machine Learning · Computer Science 2026-05-28 Tue M. Cao , Nguyen Do , My T. Thai

Deep learning models often suffer from a lack of interpretability due to polysemanticity, where individual neurons are activated by multiple unrelated semantics, resulting in unclear attributions of model behavior. Recent advances in…

Machine Learning · Computer Science 2024-10-30 Qi Zhang , Yifei Wang , Jingyi Cui , Xiang Pan , Qi Lei , Stefanie Jegelka , Yisen Wang

We identify semantically coherent, context-consistent network components in large language models (LLMs) using coactivation of sparse autoencoder (SAE) features collected from just a handful of prompts. Focusing on concept-relation…

Computation and Language · Computer Science 2026-04-21 Ruixuan Deng , Xiaoyang Hu , Miles Gilberti , Shane Storks , Aman Taxali , Mike Angstadt , Chandra Sripada , Joyce Chai

A popular new method in mechanistic interpretability is to train high-dimensional sparse autoencoders (SAEs) on neuron activations and use SAE features as the atomic units of analysis. However, the body of evidence on whether SAE feature…

Machine Learning · Computer Science 2024-09-10 Maheep Chaudhary , Atticus Geiger

Recent work in Mechanistic Interpretability (MI) has enabled the identification and intervention of internal features in Large Language Models (LLMs). However, a persistent challenge lies in linking such internal features to the reliable…

Computation and Language · Computer Science 2026-04-08 Ruikang Zhang , Shuo Wang , Qi Su

Behavioral alignment in large language models (LLMs) is often achieved through broad fine-tuning, which can result in undesired side effects like distributional shift and low interpretability. We propose a method for alignment that…

Machine Learning · Computer Science 2026-01-28 Claire O'Brien , Jessica Seto , Dristi Roy , Aditya Dwivedi , Sunishchal Dev , Kevin Zhu , Sean O'Brien , Ashwinee Panda , Ryan Lagasse
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