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Protein language models (pLMs) produce per-residue representations that capture evolutionary and structural information, yet their mean-pooled sequence embeddings are not explicitly trained to reflect functional, evolutionary or structural…

Machine Learning · Computer Science 2026-05-11 Dan Ofer , Oriel Perets , Michal Linial , Nadav Rappoport

Recently, there has been a significant upsurge of interest in leveraging large language models (LLMs) to assist scientific discovery. However, most LLMs only focus on general science, while they lack domain-specific knowledge, such as…

Computation and Language · Computer Science 2024-11-13 Liangtai Sun , Danyu Luo , Da Ma , Zihan Zhao , Baocai Chen , Zhennan Shen , Su Zhu , Lu Chen , Xin Chen , Kai Yu

Large Language Models (LLMs), trained on massive corpora with billions of parameters, show unprecedented performance in various fields. Though surprised by their excellent performances, researchers also noticed some special behaviors of…

Computation and Language · Computer Science 2024-06-05 Bowen Chen , Namgi Han , Yusuke Miyao

Recently, large language models (LLMs) have emerged as a groundbreaking technology and their unparalleled text generation capabilities have sparked interest in their application to the fundamental sentence representation learning task.…

Computation and Language · Computer Science 2024-05-20 Huiming Wang , Zhaodonghui Li , Liying Cheng , Soh De Wen , Lidong Bing

Large language models (LLMs) are increasingly leveraged as foundational backbones in the development of advanced recommender systems, offering enhanced capabilities through their extensive knowledge and reasoning. Existing llm-based…

Information Retrieval · Computer Science 2025-02-21 Minjie Hong , Yan Xia , Zehan Wang , Jieming Zhu , Ye Wang , Sihang Cai , Xiaoda Yang , Quanyu Dai , Zhenhua Dong , Zhimeng Zhang , Zhou Zhao

Recently, large language models (LLMs) have shown great potential in recommender systems, either improving existing recommendation models or serving as the backbone. However, there exists a large semantic gap between LLMs and recommender…

Information Retrieval · Computer Science 2024-04-22 Bowen Zheng , Yupeng Hou , Hongyu Lu , Yu Chen , Wayne Xin Zhao , Ming Chen , Ji-Rong Wen

We explore optimally training protein language models, an area of significant interest in biological research where guidance on best practices is limited. Most models are trained with extensive compute resources until performance gains…

Machine Learning · Computer Science 2024-11-05 Xingyi Cheng , Bo Chen , Pan Li , Jing Gong , Jie Tang , Le Song

Despite the recent broad adoption of Large Language Models (LLMs) across various domains, their potential for enriching information systems in extracting and exploring Linked Data (LD) and Resource Description Framework (RDF) triplestores…

Information Retrieval · Computer Science 2024-09-25 Omar Mussa , Omer Rana , Benoît Goossens , Pablo Orozco-Terwengel , Charith Perera

Drug repurposing is often framed as a candidate identification task, but existing approaches provide limited guidance for distinguishing biologically plausible candidates from historically well-connected ones. Here we introduce DrugKLM, a…

Instruction tuning has emerged as the key in aligning large language models (LLMs) with specific task instructions, thereby mitigating the discrepancy between the next-token prediction objective and users' actual goals. To reduce the labor…

Computation and Language · Computer Science 2024-04-10 Zifeng Wang , Chun-Liang Li , Vincent Perot , Long T. Le , Jin Miao , Zizhao Zhang , Chen-Yu Lee , Tomas Pfister

Foundation models have revolutionized natural language processing and artificial intelligence, significantly enhancing how machines comprehend and generate human languages. Inspired by the success of these foundation models, researchers…

This paper explores the integration of Large Language Models (LLMs) into Automatic Speech Recognition (ASR) systems to improve transcription accuracy. The increasing sophistication of LLMs, with their in-context learning capabilities and…

Computation and Language · Computer Science 2025-06-03 Zeping Min , Jinbo Wang

In recent years, transformer-based large language models (LLMs) have revolutionised natural language processing (NLP), with generative models opening new possibilities for tasks that require context-aware text generation. Requirements…

Computation and Language · Computer Science 2025-04-24 Waad Alhoshan , Alessio Ferrari , Liping Zhao

Large Language Models (LLMs) often generate inaccurate responses (hallucinations) when faced with questions beyond their knowledge scope. Retrieval-Augmented Generation (RAG) addresses this by leveraging external knowledge, but a critical…

Information Retrieval · Computer Science 2025-09-10 Haoxiang Jin , Ronghan Li , Zixiang Lu , Qiguang Miao

Recommender systems are widely used in online services, with embedding-based models being particularly popular due to their expressiveness in representing complex signals. However, these models often function as a black box, making them…

Information Retrieval · Computer Science 2024-06-25 Yuxuan Lei , Jianxun Lian , Jing Yao , Xu Huang , Defu Lian , Xing Xie

Large language models (LLMs) have demonstrated remarkable capabilities across various domains, yet their application to relational deep learning (RDL) remains underexplored. Existing approaches adapt LLMs by traversing relational links…

Computation and Language · Computer Science 2025-06-09 Fang Wu , Vijay Prakash Dwivedi , Jure Leskovec

Large Language Models (LLMs) have shown remarkable capabilities in general domains but often struggle with tasks requiring specialized knowledge. Conventional Retrieval-Augmented Generation (RAG) techniques typically retrieve external…

Computation and Language · Computer Science 2025-02-20 Yucheng Shi , Tianze Yang , Canyu Chen , Quanzheng Li , Tianming Liu , Xiang Li , Ninghao Liu

Large language models (LLMs) are effective at capturing complex, valuable conceptual representations from textual data for a wide range of real-world applications. However, in fields like Intelligent Fault Diagnosis (IFD), incorporating…

Artificial Intelligence · Computer Science 2024-12-03 Hamzah A. A. M. Qaid , Bo Zhang , Dan Li , See-Kiong Ng , Wei Li

As one of the most advanced techniques in AI, Retrieval-Augmented Generation (RAG) can offer reliable and up-to-date external knowledge, providing huge convenience for numerous tasks. Particularly in the era of AI-Generated Content (AIGC),…

Computation and Language · Computer Science 2024-06-18 Wenqi Fan , Yujuan Ding , Liangbo Ning , Shijie Wang , Hengyun Li , Dawei Yin , Tat-Seng Chua , Qing Li

Sequential Recommendation (SR) task involves predicting the next item a user is likely to interact with, given their past interactions. The SR models examine the sequence of a user's actions to discern more complex behavioral patterns and…

Information Retrieval · Computer Science 2025-04-22 Wujiang Xu , Qitian Wu , Zujie Liang , Jiaojiao Han , Xuying Ning , Yunxiao Shi , Wenfang Lin , Yongfeng Zhang