{"id":"https://openalex.org/W2949123151","doi":"https://doi.org/10.1093/bioinformatics/bty851","title":"VIRULIGN: fast codon-correct alignment and annotation of viral genomes","display_name":"VIRULIGN: fast codon-correct alignment and annotation of viral genomes","publication_year":2018,"publication_date":"2018-10-05","ids":{"openalex":"https://openalex.org/W2949123151","doi":"https://doi.org/10.1093/bioinformatics/bty851","mag":"2949123151","pmid":"https://pubmed.ncbi.nlm.nih.gov/30295730"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty851","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty851","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/10/1763/28604627/bty851.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/35/10/1763/28604627/bty851.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5068276498","display_name":"Pieter Libin","orcid":null},"institutions":[{"id":"https://openalex.org/I13469542","display_name":"Vrije Universiteit Brussel","ror":"https://ror.org/006e5kg04","country_code":"BE","type":"education","lineage":["https://openalex.org/I13469542"]},{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE"],"is_corresponding":true,"raw_author_name":"Pieter J K Libin","raw_affiliation_strings":["Artificial Intelligence Lab, Department of Computer Science, Vrije Universiteit Brussel, Brussels, Belgium","KU Leuven, Rega Institute for Medical, Laboratorium of Clinical and Evolutionary Virology, Leuven, Belgium"],"affiliations":[{"raw_affiliation_string":"Artificial Intelligence Lab, Department of Computer Science, Vrije Universiteit Brussel, Brussels, Belgium","institution_ids":["https://openalex.org/I13469542"]},{"raw_affiliation_string":"KU Leuven, Rega Institute for Medical, Laboratorium of Clinical and Evolutionary Virology, Leuven, Belgium","institution_ids":["https://openalex.org/I24156275","https://openalex.org/I99464096"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081337249","display_name":"Koen Deforche","orcid":"https://orcid.org/0000-0003-3898-9494"},"institutions":[{"id":"https://openalex.org/I4210130072","display_name":"Emweb (Belgium)","ror":"https://ror.org/03800bc44","country_code":"BE","type":"company","lineage":["https://openalex.org/I4210130072"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Koen Deforche","raw_affiliation_strings":["Emweb, Herent, Belgium"],"affiliations":[{"raw_affiliation_string":"Emweb, Herent, Belgium","institution_ids":["https://openalex.org/I4210130072"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083160202","display_name":"Ana Abecasis","orcid":"https://orcid.org/0000-0002-3903-5265"},"institutions":[{"id":"https://openalex.org/I4210166638","display_name":"Instituto de Investiga\u00e7\u00e3o Cient\u00edfica Tropical","ror":"https://ror.org/007qsya74","country_code":"PT","type":"funder","lineage":["https://openalex.org/I4210146676","https://openalex.org/I4210166638"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Ana B Abecasis","raw_affiliation_strings":["Center for Global Health and Tropical Medicine, Institute for Hygiene and Tropical Medicine, Lisboa, Portugal"],"affiliations":[{"raw_affiliation_string":"Center for Global Health and Tropical Medicine, Institute for Hygiene and Tropical Medicine, Lisboa, Portugal","institution_ids":["https://openalex.org/I4210166638"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5090903598","display_name":"Kristof Theys","orcid":"https://orcid.org/0000-0003-0242-7000"},"institutions":[{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Kristof Theys","raw_affiliation_strings":["KU Leuven, Rega Institute for Medical, Laboratorium of Clinical and Evolutionary Virology, Leuven, Belgium"],"affiliations":[{"raw_affiliation_string":"KU Leuven, Rega Institute for Medical, Laboratorium of Clinical and Evolutionary Virology, Leuven, Belgium","institution_ids":["https://openalex.org/I24156275","https://openalex.org/I99464096"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5068276498"],"corresponding_institution_ids":["https://openalex.org/I13469542","https://openalex.org/I24156275","https://openalex.org/I99464096"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":2.5986,"has_fulltext":true,"cited_by_count":70,"citation_normalized_percentile":{"value":0.90889908,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"35","issue":"10","first_page":"1763","last_page":"1765"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9991000294685364,"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/T10494","display_name":"Plant Virus Research Studies","score":0.9976999759674072,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.843289852142334},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7064027190208435},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.6360248923301697},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6103398203849792},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5170534253120422},{"id":"https://openalex.org/keywords/genome-project","display_name":"Genome project","score":0.42657727003097534},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4215143918991089},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3572341799736023},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19079318642616272},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.18706092238426208},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14785438776016235},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1023065447807312},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08220145106315613}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.843289852142334},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7064027190208435},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.6360248923301697},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6103398203849792},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5170534253120422},{"id":"https://openalex.org/C89566754","wikidata":"https://www.wikidata.org/wiki/Q2273828","display_name":"Genome project","level":4,"score":0.42657727003097534},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4215143918991089},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3572341799736023},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19079318642616272},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.18706092238426208},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14785438776016235},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1023065447807312},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08220145106315613},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003062","descriptor_name":"Codon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003062","descriptor_name":"Codon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003062","descriptor_name":"Codon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1093/bioinformatics/bty851","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty851","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/10/1763/28604627/bty851.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30295730","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30295730","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:vubissmart:VUBISSMART:2000:123130","is_oa":false,"landing_page_url":"https://biblio.vub.ac.be/vubir/virulign-fast-codoncorrect-alignment-and-annotation-of-viral-genomes(6204c1e9-fb5f-44a7-b77c-04cbb4db71a4).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306402573","display_name":"VUBIR (Vrije Universiteit Brussel)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I13469542","host_organization_name":"Vrije Universiteit Brussel","host_organization_lineage":["https://openalex.org/I13469542"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"publishedVersion"},{"id":"pmh:oai:lirias2repo.kuleuven.be:123456789/628594","is_oa":true,"landing_page_url":"https://lirias.kuleuven.be/handle/123456789/628594","pdf_url":null,"source":{"id":"https://openalex.org/S4306401954","display_name":"Lirias (KU Leuven)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I99464096","host_organization_name":"KU Leuven","host_organization_lineage":["https://openalex.org/I99464096"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Bioinformatics, vol. 35 (10), (1763-1765)","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:osti.gov:1512348","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1512348","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:6513156","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6513156","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty851","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty851","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/10/1763/28604627/bty851.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4699999988079071,"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals"}],"awards":[{"id":"https://openalex.org/G4958796764","display_name":null,"funder_award_id":"GHTM-UID/Multi/04413/2013","funder_id":"https://openalex.org/F4320337197","funder_display_name":"Nuclear Fuel Cycle and Supply Chain"}],"funders":[{"id":"https://openalex.org/F4320321730","display_name":"Fonds Wetenschappelijk Onderzoek","ror":"https://ror.org/03qtxy027"},{"id":"https://openalex.org/F4320337197","display_name":"Nuclear Fuel Cycle and Supply Chain","ror":"https://ror.org/05tj7dm33"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2949123151.pdf","grobid_xml":"https://content.openalex.org/works/W2949123151.grobid-xml"},"referenced_works_count":22,"referenced_works":["https://openalex.org/W1499030718","https://openalex.org/W1988652743","https://openalex.org/W1993210385","https://openalex.org/W2008985174","https://openalex.org/W2032376294","https://openalex.org/W2074231493","https://openalex.org/W2114068009","https://openalex.org/W2119270998","https://openalex.org/W2127322768","https://openalex.org/W2132926880","https://openalex.org/W2135590910","https://openalex.org/W2136872570","https://openalex.org/W2146602601","https://openalex.org/W2160378127","https://openalex.org/W2524622036","https://openalex.org/W2579012589","https://openalex.org/W2594397242","https://openalex.org/W2753748510","https://openalex.org/W2785981673","https://openalex.org/W2949365692","https://openalex.org/W2952045272","https://openalex.org/W6679929430"],"related_works":["https://openalex.org/W2162782320","https://openalex.org/W2059565715","https://openalex.org/W3111061871","https://openalex.org/W2009940763","https://openalex.org/W2114034054","https://openalex.org/W4232413416","https://openalex.org/W45826765","https://openalex.org/W1585937270","https://openalex.org/W2537312848","https://openalex.org/W1760213857"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"is":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":9},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":19},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":2}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
