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Direct Preference Optimization (DPO) is an effective approach for aligning protein language models with experimental design goals. However, DPO faces a scalability bottleneck: the number of possible training pairs grows quadratically with…

Machine Learning · Computer Science 2025-11-27 Constance Ferragu , Jonathan D. Ziegler , Nicolas Deutschmann , Arthur Lindoulsi , Eli Bixby , Cradle ML Team

Large language models demonstrate impressive reasoning abilities but struggle to provide personalized content due to their lack of individual user preference information. Existing methods, such as in-context learning and parameter-efficient…

Computation and Language · Computer Science 2024-12-10 Sumuk Shashidhar , Abhinav Chinta , Vaibhav Sahai , Dilek Hakkani-Tür

Large Language Models (LLMs) have demonstrated remarkable performance across various domains, motivating researchers to investigate their potential use in recommendation systems. However, directly applying LLMs to recommendation tasks has…

Information Retrieval · Computer Science 2024-06-21 Zhuoxi Bai , Ning Wu , Fengyu Cai , Xinyi Zhu , Yun Xiong

We present a method and dataset for fine-tuning language models with preference supervision using feedback-driven improvement chains. Given a model response, an annotator provides fine-grained feedback by marking ``liked'' and ``disliked''…

Computation and Language · Computer Science 2025-12-30 Sky CH-Wang , Justin Svegliato , Helen Appel , Jason Eisner

Difficulty-controllable question generation for reading comprehension has gained significant attention in the field of education as a fundamental tool for adaptive learning support. Although several neural question generation methods have…

Computation and Language · Computer Science 2026-03-24 Yuto Tomikawa , Masaki Uto

De novo molecular design has extensive applications in drug discovery and materials science. The vast chemical space renders direct molecular searches computationally prohibitive, while traditional experimental screening is both time- and…

Machine Learning · Computer Science 2025-04-03 Junyu Hou

Molecular property optimization is central to drug discovery, yet many deep learning methods rely on black-box scoring and offer limited control over scaffold preservation, often producing unstable or biologically implausible edits. While…

Machine Learning · Computer Science 2026-04-15 Yi Xiong , Liang Xiong , Xiaohong Ji , Sen Yang , Zhifeng Gao , Huaimin Wang , Kele Xu

Learning from preference labels plays a crucial role in fine-tuning large language models. There are several distinct approaches for preference fine-tuning, including supervised learning, on-policy reinforcement learning (RL), and…

Preference optimization methods have been successfully applied to improve not only the alignment of large language models (LLMs) with human values, but also specific natural language tasks such as summarization and stylistic continuations.…

Machine Learning · Computer Science 2025-02-06 Salem Lahlou , Abdalgader Abubaker , Hakim Hacid

Direct alignment methods are increasingly used for aligning large language models (LLMs) with human preferences. However, these methods suffer from the issues of verbosity and likelihood displacement, which can be driven by the noisy…

Computation and Language · Computer Science 2025-10-28 Peter Chen , Xi Chen , Wotao Yin , Tianyi Lin

A plethora of protein language models have been released in recent years. Yet comparatively little work has addressed how to best sample from them to optimize desired biological properties. We fill this gap by proposing a flexible,…

Machine Learning · Computer Science 2026-05-08 Calvin McCarter , Nick Bhattacharya , Sebastian W. Ober , Hunter Elliott

Reinforcement Learning from Human Feedback (RLHF) and derivative techniques like Direct Preference Optimization (DPO) are task-alignment algorithms used to repurpose general, foundational models for specific tasks. We show that applying…

Computation and Language · Computer Science 2025-09-30 Kaden Uhlig , Joern Wuebker , Raphael Reinauer , John DeNero

Aligning language models (LMs) with preferences is an important problem in natural language generation. A key challenge is that preferences are typically provided at the sequence level while LM training and generation both occur at the…

Computation and Language · Computer Science 2025-01-09 Shentao Yang , Shujian Zhang , Congying Xia , Yihao Feng , Caiming Xiong , Mingyuan Zhou

Aligning Large Language Models (LLMs) with human preferences is crucial, but standard methods like Reinforcement Learning from Human Feedback (RLHF) are often complex and unstable. In this work, we propose a new, simpler approach that…

Machine Learning · Computer Science 2026-01-27 Saeed Najafi , Alona Fyshe

Efficient preference optimization algorithms such as Direct Preference Optimization (DPO) have become a popular approach in aligning large language models (LLMs) with human preferences. These algorithms implicitly treat the LLM as a reward…

Computation and Language · Computer Science 2025-07-29 Tong Liu , Xiao Yu , Wenxuan Zhou , Jindong Gu , Volker Tresp

Direct Preference Optimization (DPO) has emerged as a compelling approach for training Large Language Models (LLMs) to adhere to human preferences. However, the performance of DPO is sensitive to the fine-tuning of its trade-off parameter…

Artificial Intelligence · Computer Science 2024-10-15 Junkang Wu , Yuexiang Xie , Zhengyi Yang , Jiancan Wu , Jinyang Gao , Bolin Ding , Xiang Wang , Xiangnan He

Searching through chemical space is an exceptionally challenging problem because the number of possible molecules grows combinatorially with the number of atoms. Large, autoregressive models trained on databases of chemical compounds have…

Machine Learning · Computer Science 2025-10-24 Shriram Chennakesavalu , Frank Hu , Sebastian Ibarraran , Grant M. Rotskoff

Direct Preference Optimization (DPO) has become a prominent method for aligning Large Language Models (LLMs) with human preferences. While DPO has enabled significant progress in aligning English LLMs, multilingual preference alignment is…

Computation and Language · Computer Science 2025-06-06 Wen Yang , Junhong Wu , Chen Wang , Chengqing Zong , Jiajun Zhang

We study the problem of aligning large language models (LLMs) with human preference data. Contrastive preference optimization has shown promising results in aligning LLMs with available preference data by optimizing the implicit reward…

Machine Learning · Computer Science 2024-12-20 Teng Xiao , Yige Yuan , Huaisheng Zhu , Mingxiao Li , Vasant G Honavar

Generating a novel and optimized molecule with desired chemical properties is an essential part of the drug discovery process. Failure to meet one of the required properties can frequently lead to failure in a clinical test which is costly.…

Machine Learning · Computer Science 2020-10-28 Bonggun Shin , Sungsoo Park , JinYeong Bak , Joyce C. Ho