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Related papers: Hierarchical Molecular Language Models (HMLMs)

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Molecular property prediction has gained significant attention due to its transformative potential in multiple scientific disciplines. Conventionally, a molecule graph can be represented either as a graph-structured data or a SMILES text.…

Machine Learning · Computer Science 2023-07-17 Chen Qian , Huayi Tang , Zhirui Yang , Hong Liang , Yong Liu

Large language models (LLMs) are having transformative impacts across a wide range of scientific fields, particularly in the biomedical sciences. Just as the goal of Natural Language Processing is to understand sequences of words, a major…

Genomics · Quantitative Biology 2024-09-24 Gonzalo Benegas , Chengzhong Ye , Carlos Albors , Jianan Canal Li , Yun S. Song

Large language models (LLMs) process and predict sequences containing text to answer questions, and address tasks including document summarization, providing recommendations, writing software and solving quantitative problems. We provide a…

Numerical Analysis · Mathematics 2026-02-02 Ricardo Baptista , Andrew Stuart , Son Tran

Multimodal large language models (MLLMs) have made impressive progress in many applications in recent years. However, chemical MLLMs that can handle cross-modal understanding and generation remain underexplored. To fill this gap, we propose…

Machine Learning · Computer Science 2025-08-05 Qian Tan , Dongzhan Zhou , Peng Xia , Wanhao Liu , Wanli Ouyang , Lei Bai , Yuqiang Li , Tianfan Fu

Digital health tools have the potential to significantly improve the delivery of healthcare services. However, their adoption remains comparatively limited due, in part, to challenges surrounding usability and trust. Large Language Models…

Computation and Language · Computer Science 2024-03-01 Fergus Imrie , Paulius Rauba , Mihaela van der Schaar

Memory is the process of encoding, storing, and retrieving information, allowing humans to retain experiences, knowledge, skills, and facts over time, and serving as the foundation for growth and effective interaction with the world. It…

Information Retrieval · Computer Science 2025-04-24 Yaxiong Wu , Sheng Liang , Chen Zhang , Yichao Wang , Yongyue Zhang , Huifeng Guo , Ruiming Tang , Yong Liu

Artificial intelligence (AI) technology has advanced rapidly in recent years, with large language models (LLMs) emerging as a significant breakthrough. LLMs are increasingly making an impact across various industries, with the medical field…

Artificial Intelligence · Computer Science 2025-09-24 Zhiyu Kan , Wensheng Gan , Zhenlian Qi , Philip S. Yu

Large language models (LLMs) are being increasingly explored for graph tasks. Despite their remarkable success in text-based tasks, LLMs' capabilities in understanding explicit graph structures remain limited, particularly with large…

Machine Learning · Computer Science 2024-10-31 Sambhav Khurana , Xiner Li , Shurui Gui , Shuiwang Ji

While brain-inspired artificial intelligence(AI) has demonstrated promising results, current understanding of the parallels between artificial neural networks (ANNs) and human brain processing remains limited: (1) unimodal ANN studies fail…

Computer Vision and Pattern Recognition · Computer Science 2025-10-21 Yudan Ren , Xinlong Wang , Kexin Wang , Tian Xia , Zihan Ma , Zhaowei Li , Xiangrong Bi , Xiao Li , Xiaowei He

Scientific Large Language Models (Sci-LLMs) are transforming how knowledge is represented, integrated, and applied in scientific research, yet their progress is shaped by the complex nature of scientific data. This survey presents a…

Computation and Language · Computer Science 2025-10-21 Ming Hu , Chenglong Ma , Wei Li , Wanghan Xu , Jiamin Wu , Jucheng Hu , Tianbin Li , Guohang Zhuang , Jiaqi Liu , Yingzhou Lu , Ying Chen , Chaoyang Zhang , Cheng Tan , Jie Ying , Guocheng Wu , Shujian Gao , Pengcheng Chen , Jiashi Lin , Haitao Wu , Lulu Chen , Fengxiang Wang , Yuanyuan Zhang , Xiangyu Zhao , Feilong Tang , Encheng Su , Junzhi Ning , Xinyao Liu , Ye Du , Changkai Ji , Pengfei Jiang , Cheng Tang , Ziyan Huang , Jiyao Liu , Jiaqi Wei , Yuejin Yang , Xiang Zhang , Guangshuai Wang , Yue Yang , Huihui Xu , Ziyang Chen , Yizhou Wang , Chen Tang , Jianyu Wu , Yuchen Ren , Siyuan Yan , Zhonghua Wang , Zhongxing Xu , Shiyan Su , Shangquan Sun , Runkai Zhao , Zhisheng Zhang , Dingkang Yang , Jinjie Wei , Jiaqi Wang , Jiahao Xu , Jiangtao Yan , Wenhao Tang , Hongze Zhu , Yu Liu , Fudi Wang , Yiqing Shen , Yuanfeng Ji , Yanzhou Su , Tong Xie , Hongming Shan , Chun-Mei Feng , Zhi Hou , Diping Song , Lihao Liu , Yanyan Huang , Lequan Yu , Bin Fu , Shujun Wang , Xiaomeng Li , Xiaowei Hu , Yun Gu , Ben Fei , Benyou Wang , Yuewen Cao , Minjie Shen , Jie Xu , Haodong Duan , Fang Yan , Hongxia Hao , Jielan Li , Jiajun Du , Yanbo Wang , Imran Razzak , Zhongying Deng , Chi Zhang , Lijun Wu , Conghui He , Zhaohui Lu , Jinhai Huang , Wenqi Shao , Yihao Liu , Siqi Luo , Yi Xin , Xiaohong Liu , Fenghua Ling , Yuqiang Li , Aoran Wang , Siqi Sun , Qihao Zheng , Nanqing Dong , Tianfan Fu , Dongzhan Zhou , Yan Lu , Wenlong Zhang , Jin Ye , Jianfei Cai , Yirong Chen , Wanli Ouyang , Yu Qiao , Zongyuan Ge , Shixiang Tang , Junjun He , Chunfeng Song , Lei Bai , Bowen Zhou

This work presents an analytical framework for the design and analysis of LLM-based algorithms, i.e., algorithms that contain one or multiple calls of large language models (LLMs) as sub-routines and critically rely on the capabilities of…

Machine Learning · Computer Science 2025-10-14 Yanxi Chen , Yaliang Li , Bolin Ding , Jingren Zhou

Artificial intelligence (AI) is reshaping modern healthcare by advancing disease diagnosis, treatment decision-making, and biomedical research. Among AI technologies, large language models (LLMs) have become especially impactful, enabling…

Artificial Intelligence · Computer Science 2025-11-18 Zhengda Wang , Daqian Shi , Jingyi Zhao , Xiaolei Diao , Xiongfeng Tang , Yanguo Qin

Large Language Models (LLMs) have rapidly become important tools in Biomedical and Health Informatics (BHI), enabling new ways to analyze data, treat patients, and conduct research. This study aims to provide a comprehensive overview of LLM…

Digital Libraries · Computer Science 2024-07-30 Huizi Yu , Lizhou Fan , Lingyao Li , Jiayan Zhou , Zihui Ma , Lu Xian , Wenyue Hua , Sijia He , Mingyu Jin , Yongfeng Zhang , Ashvin Gandhi , Xin Ma

Guiding biological systems toward desired states, such as morphogenetic outcomes, remains a fundamental challenge with far-reaching implications for medicine and synthetic biology. While large language models (LLMs) have enabled natural…

Artificial Intelligence · Computer Science 2025-08-27 Nam H. Le , Patrick Erikson , Yanbo Zhang , Michael Levin , Josh Bongard

Since the advent of GPT, large language models (LLMs) have brought about revolutionary advancements in all walks of life. As a superior natural language processing (NLP) technology, LLMs have consistently achieved state-of-the-art…

Networking and Internet Architecture · Computer Science 2024-06-26 Danshi Wang , Yidi Wang , Xiaotian Jiang , Yao Zhang , Yue Pang , Min Zhang

Prompt learning has become a prevalent strategy for adapting vision-language foundation models (VLMs) such as CLIP to downstream tasks. With the emergence of large language models (LLMs), recent studies have explored the potential of using…

Computer Vision and Pattern Recognition · Computer Science 2024-08-28 Yubin Wang , Xinyang Jiang , De Cheng , Wenli Sun , Dongsheng Li , Cairong Zhao

Large Language Models (LLMs) deliver powerful AI capabilities but face deployment challenges due to high resource costs and latency, whereas Small Language Models (SLMs) offer efficiency and deployability at the cost of reduced performance.…

Artificial Intelligence · Computer Science 2025-05-13 Yi Chen , JiaHao Zhao , HaoHao Han

The rapid development of Artificial Intelligence (AI) has revolutionized numerous fields, with large language models (LLMs) and computer vision (CV) systems driving advancements in natural language understanding and visual processing,…

Computation and Language · Computer Science 2024-12-04 Yunkai Dang , Kaichen Huang , Jiahao Huo , Yibo Yan , Sirui Huang , Dongrui Liu , Mengxi Gao , Jie Zhang , Chen Qian , Kun Wang , Yong Liu , Jing Shao , Hui Xiong , Xuming Hu

Molecular communication (MC) engineering is inspired by the use of chemical signals as information carriers in cell biology. The biological nature of chemical signaling makes MC a promising methodology for interdisciplinary applications…

Emerging Technologies · Computer Science 2020-09-02 Dadi Bi , Apostolos Almpanis , Adam Noel , Yansha Deng , Robert Schober

Cross-modal reasoning (CMR), the intricate process of synthesizing and drawing inferences across divergent sensory modalities, is increasingly recognized as a crucial capability in the progression toward more sophisticated and…

Computation and Language · Computer Science 2024-10-01 Shengsheng Qian , Zuyi Zhou , Dizhan Xue , Bing Wang , Changsheng Xu
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