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Finetuning a Large Language Model (LLM) is crucial for generating results towards specific objectives. This research delves into the realm of drug optimization and introduce a novel reinforcement learning algorithm to finetune a drug…

Machine Learning · Computer Science 2025-02-12 Xuefeng Liu , Songhao Jiang , Siyu Chen , Zhuoran Yang , Yuxin Chen , Ian Foster , Rick Stevens

Large Language Models (LLMs) are frequently used for multi-faceted language generation and evaluation tasks that involve satisfying intricate user constraints or taking into account multiple aspects and criteria. However, their performance…

Computation and Language · Computer Science 2024-06-10 Swarnadeep Saha , Omer Levy , Asli Celikyilmaz , Mohit Bansal , Jason Weston , Xian Li

Large Language Models (LLMs), with their remarkable task-handling capabilities and innovative outputs, have catalyzed significant advancements across a spectrum of fields. However, their proficiency within specialized domains such as…

Quantitative Methods · Quantitative Biology 2024-03-05 Yin Fang , Xiaozhuan Liang , Ningyu Zhang , Kangwei Liu , Rui Huang , Zhuo Chen , Xiaohui Fan , Huajun Chen

Large Language Models (LLMs) are central to the one-for-all intelligent paradigm, but they face a fundamental challenge when dealing with heterogeneous scientific data such as molecules: the inherent gap between discrete linguistic symbols…

Artificial Intelligence · Computer Science 2026-05-22 Yuxuan Chen , Changwei Lv , Yunduo Xiao , Zhongjing Du , Daquan Zhou , Yukun Yan , Zheni Zeng , Zhiyuan Liu

Reinforcement learning (RL) over text representations can be effective for finding high-value policies that can search over graphs. However, RL requires careful structuring of the search space and algorithm design to be effective in this…

Machine Learning · Computer Science 2023-10-05 Raj Ghugare , Santiago Miret , Adriana Hugessen , Mariano Phielipp , Glen Berseth

Large Language Models (LLMs) and pre-trained Language Models (LMs) have achieved impressive success on many software engineering tasks (e.g., code completion and code generation). By leveraging huge existing code corpora (e.g., GitHub),…

Software Engineering · Computer Science 2025-01-16 Xin Yin , Chao Ni , Xiaodan Xu , Xinrui Li , Xiaohu Yang

Retrosynthesis, the process of breaking down a target molecule into simpler precursors through a series of valid reactions, stands at the core of organic chemistry and drug development. Although recent machine learning (ML) research has…

Artificial Intelligence · Computer Science 2026-05-12 Haorui Wang , Jeff Guo , Lingkai Kong , Rampi Ramprasad , Philippe Schwaller , Yuanqi Du , Chao Zhang

Recent advancements in speculative decoding have demonstrated considerable speedup across a wide array of large language model (LLM) tasks. Speculative decoding inherently relies on sacrificing extra memory allocations to generate several…

Machine Learning · Computer Science 2025-06-04 Selin Yildirim , Deming Chen

Designing proteins de novo with tailored structural, physicochemical, and functional properties remains a grand challenge in biotechnology, medicine, and materials science, due to the vastness of sequence space and the complex coupling…

Artificial Intelligence · Computer Science 2025-12-01 Fiona Y. Wang , Di Sheng Lee , David L. Kaplan , Markus J. Buehler

Low-resource languages (LRLs) face significant challenges in natural language processing (NLP) due to limited data. While current state-of-the-art large language models (LLMs) still struggle with LRLs, smaller multilingual models (mLMs)…

Computation and Language · Computer Science 2025-02-17 Daniil Gurgurov , Ivan Vykopal , Josef van Genabith , Simon Ostermann

Large Language Models (LLMs) have substantially driven scientific progress in various domains, and many papers have demonstrated their ability to tackle complex problems with creative solutions. Our paper introduces a new foundation model,…

Large Language Models (LLMs) have gained significant attention in the field of natural language processing (NLP) due to their wide range of applications. However, training LLMs for languages other than English poses significant challenges,…

Computation and Language · Computer Science 2024-05-20 Yudong Li , Yuhao Feng , Wen Zhou , Zhe Zhao , Linlin Shen , Cheng Hou , Xianxu Hou

Recently, the fast development of Large Language Models (LLMs) such as ChatGPT has significantly advanced NLP tasks by enhancing the capabilities of conversational models. However, the application of LLMs in the recommendation domain has…

Information Retrieval · Computer Science 2023-08-24 Junling Liu , Chao Liu , Peilin Zhou , Qichen Ye , Dading Chong , Kang Zhou , Yueqi Xie , Yuwei Cao , Shoujin Wang , Chenyu You , Philip S. Yu

In contrast to their remarkable performance on general knowledge QA, the true abilities of Large Language Models (LLMs) in tasks demanding deep, specialized reasoning, such as in protein biology, have yet to be thoroughly investigated.…

Quantitative Methods · Quantitative Biology 2025-12-30 Dingyi Rong , Zijian Chen , Qi Jia , Kaiwei Zhang , Haotian Lu , Guangtao Zhai , Ning Liu

Large language models (LLMs) are powerful artificial intelligence (AI) tools transforming how research is conducted. However, their use in research has been met with skepticism, due to concerns about hallucinations, biases and potential…

Artificial Intelligence · Computer Science 2025-07-08 Ruian Ke , Ruy M. Ribeiro

Applications of machine learning in chemistry are often limited by the scarcity and expense of labeled data, restricting traditional supervised methods. In this work, we introduce a framework for molecular reasoning using general-purpose…

Predicting molecular properties is a critical component of drug discovery. Recent advances in deep learning, particularly Graph Neural Networks (GNNs), have enabled end-to-end learning from molecular structures, reducing reliance on manual…

Computation and Language · Computer Science 2025-09-26 Peng Zhou , Lai Hou Tim , Zhixiang Cheng , Kun Xie , Chaoyi Li , Wei Liu , Xiangxiang Zeng

The advent of Multilingual Language Models (MLLMs) and Large Language Models has spawned innovation in many areas of natural language processing. Despite the exciting potential of this technology, its impact on developing high-quality…

Computation and Language · Computer Science 2024-03-06 Séamus Lankford , Haithem Afli , Andy Way

Large Language Models (LLMs) have demonstrated a powerful ability for text generation. However, achieving optimal results with a given prompt or instruction can be challenging, especially for billion-sized models. Additionally, undesired…

Computation and Language · Computer Science 2024-10-07 Lifu Tu , Semih Yavuz , Jin Qu , Jiacheng Xu , Rui Meng , Caiming Xiong , Yingbo Zhou

The rapid advancement of Artificial Intelligence has resulted in the advent of Large Language Models (LLMs) with the capacity to produce text that closely resembles human communication. These models have been seamlessly integrated into…

Machine Learning · Computer Science 2025-02-04 Zenon Lamprou , Yashar Moshfeghi