Author name cluster

Tuomas P. Oikarinen

Possible papers associated with this exact author name in Arrow. This page groups case-insensitive exact name matches and is not a full identity disambiguation profile.

6 papers

1 author row

ICLR Conference 2025 Conference Paper

Concept Bottleneck Language Models For Protein Design

Aya Abdelsalam Ismail
Tuomas P. Oikarinen
Amy Wang
Julius Adebayo
Samuel Don Stanton
Héctor Corrada Bravo
Kyunghyun Cho
Nathan C. Frey

We introduce Concept Bottleneck Protein Language Models (CB-pLM), a generative masked language model with a layer where each neuron corresponds to an interpretable concept. Our architecture offers three key benefits: i) Control: We can intervene on concept values to precisely control the properties of generated proteins, achieving a 3$\times$ larger change in desired concept values compared to baselines. ii) Interpretability: A linear mapping between concept values and predicted tokens allows transparent analysis of the model's decision-making process. iii) Debugging: This transparency facilitates easy debugging of trained models. Our models achieve pre-training perplexity and downstream task performance comparable to traditional masked protein language models, demonstrating that interpretability does not compromise performance. While adaptable to any language model, we focus on masked protein language models due to their importance in drug discovery and the ability to validate our model's capabilities through real-world experiments and expert knowledge. We scale our CB-pLM from 24 million to 3 billion parameters, making them the largest Concept Bottleneck Models trained and the first capable of generative language modeling.

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ICLR Conference 2025 Conference Paper

Concept Bottleneck Large Language Models

Chung-En Sun
Tuomas P. Oikarinen
Berk Ustun
Tsui-Wei Weng

We introduce Concept Bottleneck Large Language Models (CB-LLMs), a novel framework for building inherently interpretable Large Language Models (LLMs). In contrast to traditional black-box LLMs that rely on limited post-hoc interpretations, CB-LLMs integrate intrinsic interpretability directly into the LLMs -- allowing accurate explanations with scalability and transparency. We build CB-LLMs for two essential NLP tasks: text classification and text generation. In text classification, CB-LLMs is competitive with, and at times outperforms, traditional black-box models while providing explicit and interpretable reasoning. For the more challenging task of text generation, interpretable neurons in CB-LLMs enable precise concept detection, controlled generation, and safer outputs. The embedded interpretability empowers users to transparently identify harmful content, steer model behavior, and unlearn undesired concepts -- significantly enhancing the safety, reliability, and trustworthiness of LLMs, which are critical capabilities notably absent in existing language models.

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ICML Conference 2025 Conference Paper

Evaluating Neuron Explanations: A Unified Framework with Sanity Checks

Tuomas P. Oikarinen
Ge Yan
Tsui-Wei Weng

Understanding the function of individual units in a neural network is an important building block for mechanistic interpretability. This is often done by generating a simple text explanation of the behavior of individual neurons or units. For these explanations to be useful, we must understand how reliable and truthful they are. In this work we unify many existing explanation evaluation methods under one mathematical framework. This allows us to compare and contrast existing evaluation metrics, understand the evaluation pipeline with increased clarity and apply existing statistical concepts on the evaluation. In addition, we propose two simple sanity checks on the evaluation metrics and show that many commonly used metrics fail these tests and do not change their score after massive changes to the concept labels. Based on our experimental and theoretical results, we propose guidelines that future evaluations should follow and identify a set of reliable evaluation metrics.

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ICML Conference 2024 Conference Paper

Linear Explanations for Individual Neurons

Tuomas P. Oikarinen
Tsui-Wei Weng

In recent years many methods have been developed to understand the internal workings of neural networks, often by describing the function of individual neurons in the model. However, these methods typically only focus on explaining the very highest activations of a neuron. In this paper we show this is not sufficient, and that the highest activation range is only responsible for a very small percentage of the neuron’s causal effect. In addition, inputs causing lower activations are often very different and can’t be reliably predicted by only looking at high activations. We propose that neurons should instead be understood as a linear combination of concepts, and develop an efficient method for producing these linear explanations. In addition, we show how to automatically evaluate description quality using simulation, i. e. predicting neuron activations on unseen inputs in vision setting.

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ICLR Conference 2023 Conference Paper

CLIP-Dissect: Automatic Description of Neuron Representations in Deep Vision Networks

Tuomas P. Oikarinen
Tsui-Wei Weng

In this paper, we propose CLIP-Dissect, a new technique to automatically describe the function of individual hidden neurons inside vision networks. CLIP-Dissect leverages recent advances in multimodal vision/language models to label internal neurons with open-ended concepts without the need for any labeled data or human examples. We show that CLIP-Dissect provides more accurate descriptions than existing methods for last layer neurons where the ground-truth is available as well as qualitatively good descriptions for hidden layer neurons. In addition, our method is very flexible: it is model agnostic, can easily handle new concepts and can be extended to take advantage of better multimodal models in the future. Finally CLIP-Dissect is computationally efficient and can label all neurons from five layers of ResNet-50 in just 4 minutes, which is more than 10$\times$ faster than existing methods. Our code is available at https://github.com/Trustworthy-ML-Lab/CLIP-dissect.

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ICLR Conference 2023 Conference Paper

Label-free Concept Bottleneck Models

Tuomas P. Oikarinen
Subhro Das
Lam M. Nguyen
Tsui-Wei Weng

Concept bottleneck models (CBM) are a popular way of creating more interpretable neural networks by having hidden layer neurons correspond to human-understandable concepts. However, existing CBMs and their variants have two crucial limitations: first, they need to collect labeled data for each of the predefined concepts, which is time consuming and labor intensive; second, the accuracy of a CBM is often significantly lower than that of a standard neural network, especially on more complex datasets. This poor performance creates a barrier for adopting CBMs in practical real world applications. Motivated by these challenges, we propose Label-free CBM which is a novel framework to transform any neural network into an interpretable CBM without labeled concept data, while retaining a high accuracy. Our Label-free CBM has many advantages, it is: scalable - we present the first CBM scaled to ImageNet, efficient - creating a CBM takes only a few hours even for very large datasets, and automated - training it for a new dataset requires minimal human effort. Our code is available at https://github.com/Trustworthy-ML-Lab/Label-free-CBM.

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