Predicting the evolutionary and functional landscapes of viruses with a unified nucleotide-protein language model:LucaVirusOA
Predicting the evolutionary and functional landscapes of viruses with a unified nucleotide-protein language model:LucaVirus
Yuan-Fei Pan;Zan Xu;Tingjun Hou;Zheng Wang;Jieping Ye;Jianguo He;Edward C.Holmes;Bo Li;Yao-Qing Chen;Zhao-Rong Li;Mang Shi;Yong He;Yu-Qi Liu;Yong-Tao Shan;Shu-Ning Liu;Jia-Hao Ma;Xue Liu;Xiaoyun Pan;Yinqi Bai
State Key Laboratory of Wetland Conservation and Restoration,National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary,Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering,and Institute of Eco-Chongming,School of Life Sciences,Fudan University,Shanghai 200433,China||National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases,School of Medicine,Shenzhen Campus of Sun Yat-sen University,Sun Yat-sen University,Shenzhen 518107,China||State Key Laboratory for Biocontrol,School of Medicine,Shenzhen Campus of Sun Yat-sen University,Sun Yat-sen University,Shenzhen 518107,ChinaApsara Lab,Alibaba Cloud Intelligence,Alibaba Group,Hangzhou 310030,ChinaCollege of Pharmaceutical Sciences,Zhejiang University,Hangzhou 310058,Zhejiang,ChinaApsara Lab,Alibaba Cloud Intelligence,Alibaba Group,Hangzhou 310030,ChinaApsara Lab,Alibaba Cloud Intelligence,Alibaba Group,Hangzhou 310030,ChinaState Key Laboratory of Biocontrol,School of Life Science,Sun Yat-sen University,Guangzhou 510275,China||State Key Laboratory of Biocontrol/Southern Laboratory of Ocean Science and Engineering(Guangdong,Zhuhai),School of Marine Sciences,Sun Yat-sen University||Guangzhou 510275,ChinaSchool of Medical Sciences,The University of Sydney,Sydney,NSW 2006,AustraliaState Key Laboratory of Wetland Conservation and Restoration,National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary,Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering,and Institute of Eco-Chongming,School of Life Sciences,Fudan University,Shanghai 200433,China||State Key Laboratory for Vegetation Structure,Functions and Construction(VegLab),Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China,Institute of Biodiversity,School of Ecology and Environmental Science,and Southwest United Graduate School,Yunnan University,Kunming 650500,ChinaSchool of Public Health(Shenzhen),Shenzhen Campus of Sun Yat-sen University,Sun Yat-sen University,Shenzhen 518107,ChinaApsara Lab,Alibaba Cloud Intelligence,Alibaba Group,Hangzhou 310030,China||Zhejiang Lab,Hangzhou 311121,ChinaNational Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases,School of Medicine,Shenzhen Campus of Sun Yat-sen University,Sun Yat-sen University,Shenzhen 518107,China||State Key Laboratory for Biocontrol,School of Medicine,Shenzhen Campus of Sun Yat-sen University,Sun Yat-sen University,Shenzhen 518107,China||Guangdong Provincial Center for Disease Control and Prevention,Guangzhou 511430,ChinaApsara Lab,Alibaba Cloud Intelligence,Alibaba Group,Hangzhou 310030,ChinaHangzhou Institute for Advanced Study,University of Chinese Academy of Sciences,Hangzhou 310024,China||HIM-BGI Omics Center,Hangzhou Institute of Medicine(HIM),Chinese Academy of Sciences,Hangzhou 310000,China||BGI Research,Hangzhou 310030,China||Zhejiang Lab,Hangzhou 311121,ChinaZhejiang Lab,Hangzhou 311121,China||State Key Laboratory of Biocontrol,School of Life Science,Sun Yat-sen University,Guangzhou 510275,ChinaSchool of Public Health(Shenzhen),Shenzhen Campus of Sun Yat-sen University,Sun Yat-sen University,Shenzhen 518107,ChinaNational Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases,School of Medicine,Shenzhen Campus of Sun Yat-sen University,Sun Yat-sen University,Shenzhen 518107,China||State Key Laboratory for Biocontrol,School of Medicine,Shenzhen Campus of Sun Yat-sen University,Sun Yat-sen University,Shenzhen 518107,ChinaNational Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases,School of Medicine,Shenzhen Campus of Sun Yat-sen University,Sun Yat-sen University,Shenzhen 518107,ChinaState Key Laboratory of Wetland Conservation and Restoration,National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary,Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering,and Institute of Eco-Chongming,School of Life Sciences,Fudan University,Shanghai 200433,ChinaBGI Research,Sanya 572025,China
virologyartificial intelligenceemerging diseasesfoundation modelvirus evolutionpandemic preparedness
virologyartificial intelligenceemerging diseasesfoundation modelvirus evolutionpandemic preparedness
《国家科学评论（英文版）》 2026 (14)
36-49,14
This work was supported by the National Natural Science Foundation of China Special Fund for Human Virome Project(82341118)(M.S.,Z.-R.L.,Y.H.)the National Natural Science Foundation of China Basic Research Project for Doctoral Students(323B2018)(Y.-F.P.)the National Key Research and Development Program of China(2024YFC2607502,2025ZD01901102,2025ZD01900401)(M.S.,Y.-F.P.)the Strategic Research and Consulting Project of the Chinese Academy of Engineering(2023-JB-12)(M.S.)the Shenzhen Science and Technology Program(KQTD20200820145822023)(M.S.,Y.-Q.C.)Major Project of Guangzhou National Laboratory(GZNL2023A01001)(M.S.)the Fundamental Research Funds for the Central Universities,Sun Yat-sen University(M.S.)the NHMRC(Australia)In-vestigator Award(GNT2017197)(E.C.H.)and AIR@InnoHK administered by the Innovation and Technology Commission,Hong Kong S.A.R.(ECH).
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