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Large language models (LLMs) often lack specialized knowledge for complex bioinformatics applications. We present a reproducible pipeline for fine-tuning LLMs on specialized bioinformatics data, demonstrated through two use cases: PRSGPT,…

Computation and Language · Computer Science 2026-01-21 Muhammad Muneeb , David B. Ascher

Large Language Models (LLMs) have demonstrated exceptional capabilities across various natural language processing tasks. Yet, many of these advanced LLMs are tailored for broad, general-purpose applications. In this technical report, we…

Proteins are essential component of human life and their structures are important for function and mechanism analysis. Recent work has shown the potential of AI-driven methods for protein structure prediction. However, the development of…

Robots are increasingly common in industry and daily life, such as in nursing homes where they can assist staff. A key challenge is developing intuitive interfaces for easy communication. The use of Large Language Models (LLMs) like GPT-4…

Robotics · Computer Science 2024-08-01 Stanislau Stankevich , Wojciech Dudek

Multimodal Large Language Models (MLLMs), such as GPT4o, have shown strong capabilities in visual reasoning and explanation generation. However, despite these strengths, they face significant challenges in the increasingly critical task of…

Computer Vision and Pattern Recognition · Computer Science 2026-04-08 Fanrui Zhang , Jiawei Liu , Jiaying Zhu , Esther Sun , Dong Li , Qiang Zhang , Zheng-Jun Zha

Large Language Models (LLMs) have revolutionized the field of Natural Language Processing thanks to their ability to reuse knowledge acquired on massive text corpora on a wide variety of downstream tasks, with minimal (if any) tuning steps.…

Computation and Language · Computer Science 2024-07-12 Flavio Petruzzellis , Alberto Testolin , Alessandro Sperduti

This study is a pioneering endeavor to investigate the capabilities of Large Language Models (LLMs) in addressing conceptual questions within the domain of mechanical engineering with a focus on mechanics. Our examination involves a…

Computation and Language · Computer Science 2024-01-25 Jie Tian , Jixin Hou , Zihao Wu , Peng Shu , Zhengliang Liu , Yujie Xiang , Beikang Gu , Nicholas Filla , Yiwei Li , Ning Liu , Xianyan Chen , Keke Tang , Tianming Liu , Xianqiao Wang

We introduce AnyGPT, an any-to-any multimodal language model that utilizes discrete representations for the unified processing of various modalities, including speech, text, images, and music. AnyGPT can be trained stably without any…

Generalized large language models (LLMs) such as GPT-4 may not provide specific answers to queries formulated by materials science researchers. These models may produce a high-level outline but lack the capacity to return detailed…

Computation and Language · Computer Science 2024-06-04 Achuth Chandrasekhar , Jonathan Chan , Francis Ogoke , Olabode Ajenifujah , Amir Barati Farimani

Scientific workflow systems are increasingly popular for expressing and executing complex data analysis pipelines over large datasets, as they offer reproducibility, dependability, and scalability of analyses by automatic parallelization on…

Distributed, Parallel, and Cluster Computing · Computer Science 2024-07-09 Mario Sänger , Ninon De Mecquenem , Katarzyna Ewa Lewińska , Vasilis Bountris , Fabian Lehmann , Ulf Leser , Thomas Kosch

Recently, the increasing demand for superior medical services has highlighted the discrepancies in the medical infrastructure. With big data, especially texts, forming the foundation of medical services, there is an exigent need for…

Computation and Language · Computer Science 2024-07-17 Yuanhe Tian , Ruyi Gan , Yan Song , Jiaxing Zhang , Yongdong Zhang

Multimodal large language models (MLLMs) represent an evolutionary expansion in the capabilities of traditional large language models, enabling them to tackle challenges that surpass the scope of purely text-based applications. It leverages…

Computation and Language · Computer Science 2025-01-17 Jinlong He , Pengfei Li , Gang Liu , Genrong He , Zhaolin Chen , Shenjun Zhong

The global demand for sustainable protein sources has accelerated the need for intelligent tools that can rapidly process and synthesise domain-specific scientific knowledge. In this study, we present a proof-of-concept multi-agent…

Artificial Intelligence · Computer Science 2025-06-26 Alexander D. Kalian , Jaewook Lee , Stefan P. Johannesson , Lennart Otte , Christer Hogstrand , Miao Guo

While the recent advances in Multimodal Large Language Models (MLLMs) constitute a significant leap forward in the field, these models are predominantly confined to the realm of input-side multimodal comprehension, lacking the capacity for…

Computer Vision and Pattern Recognition · Computer Science 2024-10-29 Zhanyu Wang , Longyue Wang , Zhen Zhao , Minghao Wu , Chenyang Lyu , Huayang Li , Deng Cai , Luping Zhou , Shuming Shi , Zhaopeng Tu

Generative Large Language Models (gLLMs), such as ChatGPT, are increasingly being used in communication research for content analysis. Studies show that gLLMs can outperform both crowd workers and trained coders, such as research…

Artificial Intelligence · Computer Science 2025-10-29 Daria Kravets-Meinke , Hannah Schmid-Petri , Sonja Niemann , Ute Schmid

Large language models (LLMs) have shown impressive ability for open-domain NLP tasks. However, LLMs are sometimes too footloose for natural language understanding (NLU) tasks which always have restricted output and input format. Their…

Large Language models (LLMs) have emerged as powerful tools for addressing challenges across diverse domains. Notably, recent studies have demonstrated that large language models significantly enhance the efficiency of biomolecular analysis…

Computation and Language · Computer Science 2025-03-07 Jiyue Jiang , Zikang Wang , Yuheng Shan , Heyan Chai , Jiayi Li , Zixian Ma , Xinrui Zhang , Yu Li

Phenotype-driven gene prioritization is a critical process in the diagnosis of rare genetic disorders for identifying and ranking potential disease-causing genes based on observed physical traits or phenotypes. While traditional approaches…

Quantitative Methods · Quantitative Biology 2024-04-04 Junyoung Kim , Jingye Yang , Kai Wang , Chunhua Weng , Cong Liu

This paper describes a rapid feasibility study of using GPT-4, a large language model (LLM), to (semi)automate data extraction in systematic reviews. Despite the recent surge of interest in LLMs there is still a lack of understanding of how…

Computation and Language · Computer Science 2025-02-14 Lena Schmidt , Kaitlyn Hair , Sergio Graziosi , Fiona Campbell , Claudia Kapp , Alireza Khanteymoori , Dawn Craig , Mark Engelbert , James Thomas

Large Language Models (LLMs) have shown promising results on various language and vision tasks. Recently, there has been growing interest in applying LLMs to graph-based tasks, particularly on Text-Attributed Graphs (TAGs). However, most…

Machine Learning · Computer Science 2024-06-10 Zhongmou He , Jing Zhu , Shengyi Qian , Joyce Chai , Danai Koutra