{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,9]],"date-time":"2026-07-09T23:38:03Z","timestamp":1783640283532,"version":"3.55.0"},"reference-count":23,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2023,7,6]],"date-time":"2023-07-06T00:00:00Z","timestamp":1688601600000},"content-version":"vor","delay-in-days":186,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Next Generation EU Program","award":["PNRR-PE-AI FAIR"],"award-info":[{"award-number":["PNRR-PE-AI FAIR"]}]},{"name":"Next Generation EU Program","award":["PNRR-PE-AI FAIR"],"award-info":[{"award-number":["PNRR-PE-AI FAIR"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,7,6]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>With the progression of the COVID-19 pandemic, large datasets of SARS-CoV-2 genome sequences were collected to closely monitor the evolution of the virus and identify the novel variants\/strains. By analyzing genome sequencing data, health authorities can \u2018hunt\u2019 novel emerging variants of SARS-CoV-2 as early as possible, and then monitor their evolution and spread. We designed VariantHunter, a highly flexible and user-friendly tool for systematically monitoring the evolution of SARS-CoV-2 at global and regional levels. In VariantHunter, amino acid changes are analyzed over an interval of 4\u2009weeks in an arbitrary geographical area (continent, country, or region); for every week in the interval, the prevalence is computed and changes are ranked based on their increase or decrease in prevalence. VariantHunter supports two main types of analysis: lineage-independent and lineage-specific. The former considers all the available data and aims to discover new viral variants. The latter evaluates specific lineages\/viral variants to identify novel candidate designations (sub-lineages and sub-variants). Both analyses use simple statistics and visual representations (diffusion charts and heatmaps) to track viral evolution. A dataset explorer allows users to visualize available data and refine their selection. VariantHunter is a web application free to all users. The two types of supported analysis (lineage-independent and lineage-specific) allow user-friendly monitoring of the viral evolution, empowering genomic surveillance without requiring any computational background.<\/jats:p>\n               <jats:p>Database URL http:\/\/gmql.eu\/variant_hunter\/<\/jats:p>","DOI":"10.1093\/database\/baad044","type":"journal-article","created":{"date-parts":[[2023,7,6]],"date-time":"2023-07-06T18:06:26Z","timestamp":1688666786000},"source":"Crossref","is-referenced-by-count":8,"title":["VariantHunter: a method and\u00a0tool for\u00a0fast detection of\u00a0emerging SARS-CoV-2 variants"],"prefix":"10.1093","volume":"2023","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9786-2851","authenticated-orcid":false,"given":"Pietro","family":"Pinoli","sequence":"first","affiliation":[{"name":"Department of Electronics, Information, and Bioengineering, Politecnico di Milano , Via Ponzio 34\/5, Milan 20133, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4528-6586","authenticated-orcid":false,"given":"Arif","family":"Canakoglu","sequence":"additional","affiliation":[{"name":"Department of Anesthesia, Critical Care and Emergency, Fondazione IRCCS Ca\u2019 Granda Ospedale Maggiore Policlinico , Via Francesco Sforza 28, Milan 20122, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0671-2415","authenticated-orcid":false,"given":"Stefano","family":"Ceri","sequence":"additional","affiliation":[{"name":"Department of Electronics, Information, and Bioengineering, Politecnico di Milano , Via Ponzio 34\/5, Milan 20133, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3983-4961","authenticated-orcid":false,"given":"Matteo","family":"Chiara","sequence":"additional","affiliation":[{"name":"Department of Biosciences, University of Milan , Via Celoria 26, Milan 20133, Italy"},{"name":"Institute of Biomembranes, Bioenergetics and Molecular Biotechnology, Consiglio Nazionale delle Ricerche , via Amendola 122\/O, Bari 70126, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2968-8350","authenticated-orcid":false,"given":"Erika","family":"Ferrandi","sequence":"additional","affiliation":[{"name":"Department of Biosciences, University of Milan , Via Celoria 26, Milan 20133, Italy"},{"name":"Institute of Biomembranes, Bioenergetics and Molecular Biotechnology, Consiglio Nazionale delle Ricerche , via Amendola 122\/O, Bari 70126, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Luca","family":"Minotti","sequence":"additional","affiliation":[{"name":"Department of Electronics, Information, and Bioengineering, Politecnico di Milano , Via Ponzio 34\/5, Milan 20133, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8016-5750","authenticated-orcid":false,"given":"Anna","family":"Bernasconi","sequence":"additional","affiliation":[{"name":"Department of Electronics, Information, and Bioengineering, Politecnico di Milano , Via Ponzio 34\/5, Milan 20133, Italy"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2023,7,6]]},"reference":[{"key":"2023070618061632100_R1","doi-asserted-by":"crossref","DOI":"10.2807\/1560-7917.ES.2017.22.13.30494","article-title":"GISAID: global initiative on\u00a0sharing all influenza data\u2014from vision to reality","volume":"22","author":"Shu","year":"2017","journal-title":"Eurosurveillance"},{"key":"2023070618061632100_R2","doi-asserted-by":"crossref","first-page":"D141","DOI":"10.1093\/nar\/gkac1012","article-title":"GenBank 2023 update","volume":"51","author":"Sayers","year":"2023","journal-title":"Nucleic Acids 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