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Protein sequence design, determined by amino acid sequences, are essential to protein engineering problems in drug discovery. Prior approaches have resorted to evolutionary strategies or Monte-Carlo methods for protein design, but often…

Protein language models (pLMs) have demonstrated success at generating functional proteins across vast sequence spaces but lack the ability to design high-fitness variants on demand. Here, we iteratively guide pLMs toward user-defined…

Biomolecules · Quantitative Biology 2025-12-01 Filippo Stocco , Maria Artigues-Lleixa , Andrea Hunklinger , Talal Widatalla , Marc Guell , Noelia Ferruz

The growing disparity between the exponential scaling of computational resources and the finite growth of high-quality text data now constrains conventional scaling approaches for large language models (LLMs). To address this challenge, we…

Large pretrained models are showing increasingly better performance in reasoning and planning tasks across different modalities, opening the possibility to leverage them for complex sequential decision making problems. In this paper, we…

Artificial Intelligence · Computer Science 2024-10-10 Martin Klissarov , Devon Hjelm , Alexander Toshev , Bogdan Mazoure

Protein language models (PLMs) have shown promise in improving the understanding of protein sequences, contributing to advances in areas such as function prediction and protein engineering. However, training these models from scratch…

Machine Learning · Computer Science 2024-12-19 Shivasankaran Vanaja Pandi , Bharath Ramsundar

Reinforcement learning (RL) has demonstrated strong potential in training large language models (LLMs) capable of complex reasoning for real-world problem solving. More recently, RL has been leveraged to create sophisticated LLM-based…

Computation and Language · Computer Science 2025-05-22 Bowen Jin , Jinsung Yoon , Priyanka Kargupta , Sercan O. Arik , Jiawei Han

In recent years, training methods centered on Reinforcement Learning (RL) have markedly enhanced the reasoning and alignment performance of Large Language Models (LLMs), particularly in understanding human intents, following user…

Computation and Language · Computer Science 2025-09-23 Keliang Liu , Dingkang Yang , Ziyun Qian , Weijie Yin , Yuchi Wang , Hongsheng Li , Jun Liu , Peng Zhai , Yang Liu , Lihua Zhang

Large language models (LLMs) are designed to perform a wide range of tasks. To improve their ability to solve complex problems requiring multi-step reasoning, recent research leverages process reward modeling to provide fine-grained…

Computation and Language · Computer Science 2025-09-29 Weixuan Wang , Minghao Wu , Barry Haddow , Alexandra Birch

The application of reinforcement learning (RL) to enhance the reasoning capabilities of Multimodal Large Language Models (MLLMs) constitutes a rapidly advancing research area. While MLLMs extend Large Language Models (LLMs) to handle…

Artificial Intelligence · Computer Science 2025-05-22 Guanghao Zhou , Panjia Qiu , Cen Chen , Jie Wang , Zheming Yang , Jian Xu , Minghui Qiu

Reinforcement learning (RL) is a promising approach for aligning large language models (LLMs) knowledge with sequential decision-making tasks. However, few studies have thoroughly investigated the impact on LLM agents capabilities of…

Recent advances at the intersection of reinforcement learning (RL) and visual intelligence have enabled agents that not only perceive complex visual scenes but also reason, generate, and act within them. This survey offers a critical and…

Computer Vision and Pattern Recognition · Computer Science 2025-12-24 Weijia Wu , Chen Gao , Joya Chen , Kevin Qinghong Lin , Qingwei Meng , Yiming Zhang , Yuke Qiu , Hong Zhou , Mike Zheng Shou

Enhancing the complex reasoning capabilities of Large Language Models (LLMs) attracts widespread attention. While reinforcement learning (RL) has shown superior performance for improving complex reasoning, its impact on cross-lingual…

Computation and Language · Computer Science 2025-09-30 Shulin Huang , Yiran Ding , Junshu Pan , Yue Zhang

Reinforcement learning (RL) enhanced large language models (LLMs), particularly exemplified by DeepSeek-R1, have exhibited outstanding performance. Despite the effectiveness in improving LLM capabilities, its implementation remains highly…

Computation and Language · Computer Science 2025-02-25 Shuhe Wang , Shengyu Zhang , Jie Zhang , Runyi Hu , Xiaoya Li , Tianwei Zhang , Jiwei Li , Fei Wu , Guoyin Wang , Eduard Hovy

Recent advances in reasoning-centric language models have highlighted reinforcement learning (RL) as a promising method for aligning models with verifiable rewards. However, it remains contentious whether RL truly expands a model's…

Computation and Language · Computer Science 2025-06-02 Mingjie Liu , Shizhe Diao , Ximing Lu , Jian Hu , Xin Dong , Yejin Choi , Jan Kautz , Yi Dong

While reinforcement learning (RL) demonstrated remarkable success in enhancing the reasoning capabilities of language models, the training dynamics of RL in LLMs remain unclear. In this work, we provide an explanation of the RL training…

Machine Learning · Computer Science 2025-09-30 Xingwu Chen , Tianle Li , Difan Zou

Protein language models (PLMs) learn contextual representations from protein sequences and are profoundly impacting various scientific disciplines spanning protein design, drug discovery, and structural predictions. One particular research…

Quantitative Methods · Quantitative Biology 2024-02-07 Andreas Dounas , Tudor-Stefan Cotet , Alexander Yermanos

Modern Protein Language Models (PLMs) apply transformer-based model architectures from natural language processing to biological sequences, predicting a variety of protein functions and properties. However, protein language has key…

Machine Learning · Computer Science 2026-02-25 Anna Hart , Chi Han , Jeonghwan Kim , Huimin Zhao , Heng Ji

Reinforcement learning (RL) has shown impressive results in sequential decision-making tasks. Meanwhile, Large Language Models (LLMs) and Vision-Language Models (VLMs) have emerged, exhibiting impressive capabilities in multimodal…

At the intersection of the rapidly growing biological data landscape and advancements in Natural Language Processing (NLP), protein language models (PLMs) have emerged as a transformative force in modern research. These models have achieved…

Biomolecules · Quantitative Biology 2025-02-12 Lei Wang , Xudong Li , Han Zhang , Jinyi Wang , Dingkang Jiang , Zhidong Xue , Yan Wang

Reinforcement learning (RL) has increasingly become a pivotal technique in the post-training of large language models (LLMs). The effective exploration of the output space is essential for the success of RL. We observe that for complex…

Machine Learning · Computer Science 2025-07-08 Shihan Dou , Muling Wu , Jingwen Xu , Rui Zheng , Tao Gui , Qi Zhang , Xuanjing Huang
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