{"id":"https://openalex.org/W4406536241","doi":"https://doi.org/10.1038/s42256-024-00966-9","title":"A unified evolution-driven deep learning framework for virus variation driver prediction","display_name":"A unified evolution-driven deep learning framework for virus variation driver prediction","publication_year":2025,"publication_date":"2025-01-17","ids":{"openalex":"https://openalex.org/W4406536241","doi":"https://doi.org/10.1038/s42256-024-00966-9"},"language":"en","primary_location":{"id":"doi:10.1038/s42256-024-00966-9","is_oa":false,"landing_page_url":"https://doi.org/10.1038/s42256-024-00966-9","pdf_url":null,"source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5038600944","display_name":"Zhiwei Nie","orcid":"https://orcid.org/0000-0002-2781-5248"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhiwei Nie","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China","School of Electronic and Computer Engineering, Peking University, Shenzhen, China"],"raw_orcid":"https://orcid.org/0000-0002-2781-5248","affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"School of Electronic and Computer Engineering, Peking University, Shenzhen, China","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100354522","display_name":"Xudong Liu","orcid":"https://orcid.org/0000-0003-3105-4055"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xudong Liu","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China","School of Electronic and Computer Engineering, Peking University, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"School of Electronic and Computer Engineering, Peking University, Shenzhen, China","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100332984","display_name":"Jie Chen","orcid":"https://orcid.org/0000-0002-9765-4523"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jie Chen","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China","School of Electronic and Computer Engineering, Peking University, Shenzhen, China"],"raw_orcid":"https://orcid.org/0000-0002-9765-4523","affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"School of Electronic and Computer Engineering, Peking University, Shenzhen, China","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101874417","display_name":"Zhennan Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhennan Wang","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009087852","display_name":"Yutian Liu","orcid":"https://orcid.org/0000-0003-1313-7359"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yutian Liu","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China","School of Computer Science, Peking University, Beijing, China"],"raw_orcid":"https://orcid.org/0000-0003-1313-7359","affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"School of Computer Science, Peking University, Beijing, China","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021939794","display_name":"Hao-Rui Si","orcid":null},"institutions":[{"id":"https://openalex.org/I4210154954","display_name":"State Key Laboratory of Respiratory Disease","ror":"https://ror.org/04hja5e04","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210154954"]},{"id":"https://openalex.org/I92039509","display_name":"Guangzhou Medical University","ror":"https://ror.org/00zat6v61","country_code":"CN","type":"education","lineage":["https://openalex.org/I92039509"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haorui Si","raw_affiliation_strings":["Guangzhou Medical University, Guangzhou, China","Guangzhou National Laboratory, Guangzhou, China","State Key Laboratory of Respiratory Disease, Guangzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Guangzhou Medical University, Guangzhou, China","institution_ids":["https://openalex.org/I92039509"]},{"raw_affiliation_string":"Guangzhou National Laboratory, Guangzhou, China","institution_ids":[]},{"raw_affiliation_string":"State Key Laboratory of Respiratory Disease, Guangzhou, China","institution_ids":["https://openalex.org/I4210154954"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042854140","display_name":"Tianyi Dong","orcid":"https://orcid.org/0000-0001-5509-0611"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210106882","display_name":"Wuhan Institute of Virology","ror":"https://ror.org/01jxjav08","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210106882"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tianyi Dong","raw_affiliation_strings":["CAS Key Laboratory of Special Pathogens, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan, China","Guangzhou National Laboratory, Guangzhou, China","University of Chinese Academy of Sciences, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CAS Key Laboratory of Special Pathogens, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan, China","institution_ids":["https://openalex.org/I4210106882","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Guangzhou National Laboratory, Guangzhou, China","institution_ids":[]},{"raw_affiliation_string":"University of Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030671553","display_name":"Fan Xu","orcid":"https://orcid.org/0000-0002-1504-2356"},"institutions":[{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Fan Xu","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008752777","display_name":"Guoli Song","orcid":"https://orcid.org/0000-0002-5452-3697"},"institutions":[{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guoli Song","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053242621","display_name":"Yu Wang","orcid":"https://orcid.org/0000-0003-4976-9366"},"institutions":[{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yu Wang","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China"],"raw_orcid":"https://orcid.org/0000-0003-4976-9366","affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100438327","display_name":"Peng Zhou","orcid":"https://orcid.org/0000-0001-5681-9937"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Peng Zhou","raw_affiliation_strings":["Guangzhou National Laboratory, Guangzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Guangzhou National Laboratory, Guangzhou, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101523804","display_name":"Wen Gao","orcid":"https://orcid.org/0000-0001-8894-1806"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wen Gao","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China","School of Computer Science, Peking University, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"School of Computer Science, Peking University, Beijing, China","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023918894","display_name":"Yonghong Tian","orcid":"https://orcid.org/0000-0002-2978-5935"},"institutions":[{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yonghong Tian","raw_affiliation_strings":["Pengcheng Laboratory, Shenzhen, China","School of Computer Science, Peking University, Beijing, China","School of Electronic and Computer Engineering, Peking University, Shenzhen, China"],"raw_orcid":"https://orcid.org/0000-0002-2978-5935","affiliations":[{"raw_affiliation_string":"Pengcheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"School of Computer Science, Peking University, Beijing, China","institution_ids":["https://openalex.org/I20231570"]},{"raw_affiliation_string":"School of Electronic and Computer Engineering, Peking University, Shenzhen, China","institution_ids":["https://openalex.org/I20231570"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5023918894","https://openalex.org/A5100332984"],"corresponding_institution_ids":["https://openalex.org/I20231570","https://openalex.org/I4210136793"],"apc_list":{"value":9750,"currency":"EUR","value_usd":11690},"apc_paid":null,"fwci":14.112,"has_fulltext":false,"cited_by_count":18,"citation_normalized_percentile":{"value":0.99180052,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"7","issue":"1","first_page":"131","last_page":"144"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11135","display_name":"Virology and Viral Diseases","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T11135","display_name":"Virology and Viral Diseases","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9980000257492065,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.9975000023841858,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/variation","display_name":"Variation (astronomy)","score":0.7694091796875},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.5307813882827759},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4990212917327881},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3949491083621979},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.06218594312667847}],"concepts":[{"id":"https://openalex.org/C2778334786","wikidata":"https://www.wikidata.org/wiki/Q1586270","display_name":"Variation (astronomy)","level":2,"score":0.7694091796875},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.5307813882827759},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4990212917327881},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3949491083621979},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.06218594312667847},{"id":"https://openalex.org/C44870925","wikidata":"https://www.wikidata.org/wiki/Q37547","display_name":"Astrophysics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1038/s42256-024-00966-9","is_oa":false,"landing_page_url":"https://doi.org/10.1038/s42256-024-00966-9","pdf_url":null,"source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":77,"referenced_works":["https://openalex.org/W1992446800","https://openalex.org/W2031160264","https://openalex.org/W2044594296","https://openalex.org/W2057508801","https://openalex.org/W2060588922","https://openalex.org/W2085788081","https://openalex.org/W2096192437","https://openalex.org/W2128085049","https://openalex.org/W2145091349","https://openalex.org/W2152528032","https://openalex.org/W2412207659","https://openalex.org/W2782613909","https://openalex.org/W2886709672","https://openalex.org/W2942874637","https://openalex.org/W2962949934","https://openalex.org/W2963351448","https://openalex.org/W2973042438","https://openalex.org/W2980789587","https://openalex.org/W2995514860","https://openalex.org/W3000796089","https://openalex.org/W3009335299","https://openalex.org/W3013800395","https://openalex.org/W3015348407","https://openalex.org/W3037492894","https://openalex.org/W3048714202","https://openalex.org/W3087924281","https://openalex.org/W3091814234","https://openalex.org/W3092609815","https://openalex.org/W3121000782","https://openalex.org/W3141797743","https://openalex.org/W3177500196","https://openalex.org/W3177828909","https://openalex.org/W3179071715","https://openalex.org/W3179485843","https://openalex.org/W3186179742","https://openalex.org/W3196317754","https://openalex.org/W3199849883","https://openalex.org/W3202850396","https://openalex.org/W3203433659","https://openalex.org/W3208864053","https://openalex.org/W4206153788","https://openalex.org/W4206655041","https://openalex.org/W4207050895","https://openalex.org/W4210494137","https://openalex.org/W4210665241","https://openalex.org/W4214735462","https://openalex.org/W4220807057","https://openalex.org/W4220991280","https://openalex.org/W4221116249","https://openalex.org/W4238450186","https://openalex.org/W4285392187","https://openalex.org/W4285594705","https://openalex.org/W4294844887","https://openalex.org/W4296211388","https://openalex.org/W4309306331","https://openalex.org/W4310957931","https://openalex.org/W4311158909","https://openalex.org/W4311539894","https://openalex.org/W4313478008","https://openalex.org/W4313554770","https://openalex.org/W4319066889","https://openalex.org/W4320491837","https://openalex.org/W4327550249","https://openalex.org/W4327566741","https://openalex.org/W4353095414","https://openalex.org/W4362609000","https://openalex.org/W4366823175","https://openalex.org/W4380577051","https://openalex.org/W4384206834","https://openalex.org/W4385380244","https://openalex.org/W4385415878","https://openalex.org/W4387540805","https://openalex.org/W4388897344","https://openalex.org/W4389819431","https://openalex.org/W4396721167","https://openalex.org/W6920793248","https://openalex.org/W6977298713"],"related_works":["https://openalex.org/W2731899572","https://openalex.org/W3215138031","https://openalex.org/W3009238340","https://openalex.org/W4360585206","https://openalex.org/W4321369474","https://openalex.org/W4285208911","https://openalex.org/W3082895349","https://openalex.org/W4213079790","https://openalex.org/W2248239756","https://openalex.org/W3086377361"],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":9},{"year":2025,"cited_by_count":9}],"updated_date":"2026-07-17T09:13:05.818461","created_date":"2025-10-10T00:00:00"}
