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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…

Large language models possess strong chemical reasoning capabilities, making them effective molecular editors. However, property-relevant information is implicitly entangled across their dense hidden states, providing no explicit handle for…

Machine Learning · Computer Science 2026-05-12 Mingxu Zhang , Yuhan Li , Lujundong Li , Dazhong Shen , Hui Xiong , Ying Sun

Recent advances in Large Multimodal Models (LMMs) lead to significant breakthroughs in both academia and industry. One question that arises is how we, as humans, can understand their internal neural representations. This paper takes an…

Computer Vision and Pattern Recognition · Computer Science 2025-09-19 Kaichen Zhang , Yifei Shen , Bo Li , Ziwei Liu

Large Language Models (LLMs) have demonstrated human-like instruction-following abilities, particularly those exceeding 100 billion parameters. The combined capability of some smaller, resource-friendly LLMs can address most of the…

Computation and Language · Computer Science 2025-02-25 Yi-Kai Zhang , De-Chuan Zhan , Han-Jia Ye

Sparse autoencoders (SAEs) are widely used for interpreting language model activations. A key evaluation metric is the increase in cross-entropy loss between the original model logits and the reconstructed model logits when replacing model…

Machine Learning · Computer Science 2025-04-01 Adam Karvonen

Protein language models have revolutionized structure prediction, but their nonlinear nature obscures how sequence representations inform structure prediction. While sparse autoencoders (SAEs) offer a path to interpretability here by…

Biomolecules · Quantitative Biology 2025-03-13 Nithin Parsan , David J. Yang , John J. Yang

Instruction tuning data are often quantity-saturated due to the large volume of data collection and fast model iteration, leaving data selection important but underexplored. Existing quality-driven data selection methods, such as LIMA…

Computation and Language · Computer Science 2025-04-02 Xianjun Yang , Shaoliang Nie , Lijuan Liu , Suchin Gururangan , Ujjwal Karn , Rui Hou , Madian Khabsa , Yuning Mao

Large Language Models (LLMs) remain vulnerable to optimization-based jailbreak attacks that exploit internal gradient structure. While Sparse Autoencoders (SAEs) are widely used for interpretability, their robustness implications remain…

Machine Learning · Computer Science 2026-04-22 Ahson Saiyed , Sabrina Sadiekh , Chirag Agarwal

Sparse Autoencoders (SAEs) extract features from LLM internal activations, meant to correspond to interpretable concepts. A core SAE training hyperparameter is L0: how many SAE features should fire per token on average. Existing work…

Machine Learning · Computer Science 2025-12-08 David Chanin , Adrià Garriga-Alonso

We introduce a new approach to systematically map features discovered by sparse autoencoder across consecutive layers of large language models, extending earlier work that examined inter-layer feature links. By using a data-free cosine…

Machine Learning · Computer Science 2025-07-28 Daniil Laptev , Nikita Balagansky , Yaroslav Aksenov , Daniil Gavrilov

Sparse Autoencoders (SAEs) have emerged as a useful tool for interpreting the internal representations of neural networks. However, naively optimising SAEs for reconstruction loss and sparsity results in a preference for SAEs that are…

Machine Learning · Computer Science 2024-10-16 Kola Ayonrinde , Michael T. Pearce , Lee Sharkey

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

Altruism is fundamental to human societies, fostering cooperation and social cohesion. Recent studies suggest that large language models (LLMs) can display human-like prosocial behavior, but the internal computations that produce such…

General Economics · Economics 2026-04-22 Shuhuai Zhang , Shu Wang , Zijun Yao , Chuanhao Li , Xiaozhi Wang , Songfa Zhong , Tracy Xiao Liu

Reliably ensuring Large Language Models (LLMs) follow complex instructions is a critical challenge, as existing benchmarks often fail to reflect real-world use or isolate compliance from task success. We introduce MOSAIC (MOdular Synthetic…

Artificial Intelligence · Computer Science 2026-01-27 Alberto Purpura , Li Wang , Sahil Badyal , Eugenio Beaufrand , Adam Faulkner

Jailbreak attacks remain a persistent threat to large language model safety. We propose Context-Conditioned Delta Steering (CC-Delta), an SAE-based defense that identifies jailbreak-relevant sparse features by comparing token-level…

Cryptography and Security · Computer Science 2026-02-16 Yannick Assogba , Jacopo Cortellazzi , Javier Abad , Pau Rodriguez , Xavier Suau , Arno Blaas

Sparse autoencoders (SAEs) have recently emerged as pivotal tools for introspection into large language models. SAEs can uncover high-quality, interpretable features at different levels of granularity and enable targeted steering of the…

Information Retrieval · Computer Science 2026-01-19 Martin Spišák , Ladislav Peška , Petr Škoda , Vojtěch Vančura , Rodrigo Alves

Instruction-following is essential for aligning large language models (LLMs) with user intent. While recent reasoning-oriented models exhibit impressive performance on complex mathematical problems, their ability to adhere to natural…

Computation and Language · Computer Science 2025-05-27 Tingchen Fu , Jiawei Gu , Yafu Li , Xiaoye Qu , Yu Cheng

We propose a novel method that leverages sparse autoencoders (SAEs) and clustering techniques to analyze the internal token representations of large language models (LLMs) and guide generations in mathematical reasoning tasks. Our approach…

Artificial Intelligence · Computer Science 2025-10-03 Daniel Zhao , Abhilash Shankarampeta , Lanxiang Hu , Tajana Rosing , Hao Zhang

It is assumed that sparse autoencoders (SAEs) decompose polysemantic activations into interpretable linear directions, as long as the activations are composed of sparse linear combinations of underlying features. However, we find that if an…

Machine Learning · Computer Science 2025-09-29 David Chanin , Tomáš Dulka , Adrià Garriga-Alonso

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
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