{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:34:01Z","timestamp":1772138041450,"version":"3.50.1"},"reference-count":59,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2020,10,20]],"date-time":"2020-10-20T00:00:00Z","timestamp":1603152000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"AcRF Tier 2","award":["MOE2014-T2-2-023"],"award-info":[{"award-number":["MOE2014-T2-2-023"]}]},{"DOI":"10.13039\/501100001459","name":"Ministry of Education, Singapore","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100001459","id-type":"DOI","asserted-by":"crossref"}]},{"name":"A*STAR-NTU-SUTD AI Partnership","award":["RGANS1905"],"award-info":[{"award-number":["RGANS1905"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,5,5]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Influenza viruses are persistently threatening public health, causing annual epidemics and sporadic pandemics. The evolution of influenza viruses remains to be the main obstacle in the effectiveness of antiviral treatments due to rapid mutations. Previous work has been investigated to reveal the determinants of virulence of the influenza A virus. To further facilitate flu surveillance, explicit detection of influenza virulence is crucial to protect public health from potential future pandemics.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>In this article, we propose a weighted ensemble convolutional neural network (CNN) for the virulence prediction of influenza A viruses named VirPreNet that uses all eight segments. Firstly, mouse lethal dose 50 is exerted to label the virulence of infections into two classes, namely avirulent and virulent. A numerical representation of amino acids named ProtVec is applied to the eight-segments in a distributed manner to encode the biological sequences. After splittings and embeddings of influenza strains, the ensemble CNN is constructed as the base model on the influenza dataset of each segment, which serves as the VirPreNet\u2019s main part. Followed by a linear layer, the initial predictive outcomes are integrated and assigned with different weights for the final prediction. The experimental results on the collected influenza dataset indicate that VirPreNet achieves state-of-the-art performance combining ProtVec with our proposed architecture. It outperforms baseline methods on the independent testing data. Moreover, our proposed model reveals the importance of PB2 and HA segments on the virulence prediction. We believe that our model may provide new insights into the investigation of influenza virulence.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>Codes and data to generate the VirPreNet are publicly available at https:\/\/github.com\/Rayin-saber\/VirPreNet.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Supplementary information<\/jats:title>\n                    <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa901","type":"journal-article","created":{"date-parts":[[2020,10,6]],"date-time":"2020-10-06T15:16:07Z","timestamp":1601997367000},"page":"737-743","source":"Crossref","is-referenced-by-count":15,"title":["VirPreNet: a weighted ensemble convolutional neural network for the virulence prediction of influenza A virus using all eight segments\u00a0"],"prefix":"10.1093","volume":"37","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-1403-0396","authenticated-orcid":false,"given":"Rui","family":"Yin","sequence":"first","affiliation":[{"name":"School of Computer Science and Engineering, Nanyang Technological University , Singapore 639798, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zihan","family":"Luo","sequence":"additional","affiliation":[{"name":"School of Electronic Information and Communication, Huazhong University of Science and Technology , Wuhan 430074, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pei","family":"Zhuang","sequence":"additional","affiliation":[{"name":"School of Mechanical and Aerospace Engineering, Nanyang Technological University , Singapore 639798, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhuoyi","family":"Lin","sequence":"additional","affiliation":[{"name":"School of Computer Science and Engineering, Nanyang Technological University , Singapore 639798, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chee Keong","family":"Kwoh","sequence":"additional","affiliation":[{"name":"School of Computer Science and Engineering, Nanyang Technological University , Singapore 639798, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,10,20]]},"reference":[{"key":"2023051705205203100_btaa901-B1","doi-asserted-by":"crossref","first-page":"403","DOI":"10.1016\/S0022-2836(05)80360-2","article-title":"Basic local alignment search tool","volume":"215","author":"Altschul","year":"1990","journal-title":"J. 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