{"id":"https://openalex.org/W3028206028","doi":"https://doi.org/10.1186/s12859-020-3537-3","title":"VADR: validation and annotation of virus sequence submissions to GenBank","display_name":"VADR: validation and annotation of virus sequence submissions to GenBank","publication_year":2020,"publication_date":"2020-05-24","ids":{"openalex":"https://openalex.org/W3028206028","doi":"https://doi.org/10.1186/s12859-020-3537-3","mag":"3028206028","pmid":"https://pubmed.ncbi.nlm.nih.gov/32448124"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-3537-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3537-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-3537-3","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-3537-3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5000317216","display_name":"Alejandro A. Sch\u00e4ffer","orcid":"https://orcid.org/0000-0002-2147-8033"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alejandro A. Sch\u00e4ffer","raw_affiliation_strings":["Cancer Data Science Laboratory National, Cancer Insitute, National Institutes of Health, Bethesda, 20892, MD, USA","National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cancer Data Science Laboratory National, Cancer Insitute, National Institutes of Health, Bethesda, 20892, MD, USA","institution_ids":["https://openalex.org/I1299303238"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076036084","display_name":"Eneida Hatcher","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eneida L. Hatcher","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005905944","display_name":"Linda Yankie","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Linda Yankie","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091890966","display_name":"Lara Shonkwiler","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lara Shonkwiler","raw_affiliation_strings":["Massachusetts Institute of Technology, Cambridge, MA, USA","National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Massachusetts Institute of Technology, Cambridge, MA, USA","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033521210","display_name":"J. Rodney Brister","orcid":"https://orcid.org/0000-0002-2249-975X"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"J. Rodney Brister","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018297273","display_name":"Ilene Karsch\u2010Mizrachi","orcid":"https://orcid.org/0000-0002-0289-7101"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ilene Karsch-Mizrachi","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5021155495","display_name":"Eric P. Nawrocki","orcid":"https://orcid.org/0000-0002-2497-3427"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Eric P. Nawrocki","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA. nawrocke@ncbi.nlm.nih.gov","National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA"],"raw_orcid":"https://orcid.org/0000-0002-2497-3427","affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA. nawrocke@ncbi.nlm.nih.gov","institution_ids":["https://openalex.org/I4210109390"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, 20894, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5021155495"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":7.5214,"has_fulltext":true,"cited_by_count":81,"citation_normalized_percentile":{"value":0.98265733,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"21","issue":"1","first_page":"211","last_page":"211"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10167","display_name":"Influenza Virus Research Studies","score":0.5490000247955322,"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/T10167","display_name":"Influenza Virus Research Studies","score":0.5490000247955322,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.07639999687671661,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.06989999860525131,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/refseq","display_name":"RefSeq","score":0.9334702491760254},{"id":"https://openalex.org/keywords/genbank","display_name":"GenBank","score":0.9131497144699097},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.7657414674758911},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5951430797576904},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5421060919761658},{"id":"https://openalex.org/keywords/sequence-database","display_name":"Sequence database","score":0.4435079097747803},{"id":"https://openalex.org/keywords/ensembl","display_name":"Ensembl","score":0.4203774333000183},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4171620309352875},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.33483558893203735},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2941874861717224},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.28627097606658936},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.19028779864311218},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.18087711930274963},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.16056296229362488},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09854555130004883}],"concepts":[{"id":"https://openalex.org/C151810110","wikidata":"https://www.wikidata.org/wiki/Q7307074","display_name":"RefSeq","level":4,"score":0.9334702491760254},{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.9131497144699097},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.7657414674758911},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5951430797576904},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5421060919761658},{"id":"https://openalex.org/C41584329","wikidata":"https://www.wikidata.org/wiki/Q175902","display_name":"Sequence database","level":3,"score":0.4435079097747803},{"id":"https://openalex.org/C141674004","wikidata":"https://www.wikidata.org/wiki/Q1344256","display_name":"Ensembl","level":5,"score":0.4203774333000183},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4171620309352875},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.33483558893203735},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2941874861717224},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.28627097606658936},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.19028779864311218},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.18087711930274963},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.16056296229362488},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09854555130004883}],"mesh":[{"descriptor_ui":"D000073640","descriptor_name":"Betacoronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000073640","descriptor_name":"Betacoronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000073640","descriptor_name":"Betacoronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004267","descriptor_name":"DNA Viruses","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004267","descriptor_name":"DNA Viruses","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004267","descriptor_name":"DNA Viruses","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011024","descriptor_name":"Pneumonia, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011024","descriptor_name":"Pneumonia, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011024","descriptor_name":"Pneumonia, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018352","descriptor_name":"Coronavirus Infections","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D018352","descriptor_name":"Coronavirus Infections","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D018352","descriptor_name":"Coronavirus Infections","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-020-3537-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3537-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-3537-3","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32448124","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32448124","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:7245624","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7245624","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:5bd21d2d504b4fc3b7c7d6ad93c9efb9","is_oa":true,"landing_page_url":"https://doaj.org/article/5bd21d2d504b4fc3b7c7d6ad93c9efb9","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss 1, Pp 1-23 (2020)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-3537-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3537-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-020-3537-3","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.41999998688697815,"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3028206028.pdf","grobid_xml":"https://content.openalex.org/works/W3028206028.grobid-xml"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W1512916740","https://openalex.org/W1523895109","https://openalex.org/W1993842646","https://openalex.org/W1999410197","https://openalex.org/W2009570821","https://openalex.org/W2010547726","https://openalex.org/W2025305823","https://openalex.org/W2025577778","https://openalex.org/W2035613303","https://openalex.org/W2035942710","https://openalex.org/W2045843097","https://openalex.org/W2064345118","https://openalex.org/W2065843293","https://openalex.org/W2067127476","https://openalex.org/W2085026450","https://openalex.org/W2089471930","https://openalex.org/W2127979560","https://openalex.org/W2129775611","https://openalex.org/W2134884409","https://openalex.org/W2138122982","https://openalex.org/W2141152740","https://openalex.org/W2151831732","https://openalex.org/W2153736284","https://openalex.org/W2154775341","https://openalex.org/W2158088701","https://openalex.org/W2158714788","https://openalex.org/W2173732482","https://openalex.org/W2470052926","https://openalex.org/W2559258718","https://openalex.org/W2592268384","https://openalex.org/W2782382589","https://openalex.org/W2793657930","https://openalex.org/W2891525619","https://openalex.org/W2912380124","https://openalex.org/W2951216011","https://openalex.org/W2975573382","https://openalex.org/W4236459334","https://openalex.org/W4245668478"],"related_works":["https://openalex.org/W2039941094","https://openalex.org/W4392949890","https://openalex.org/W4386011922","https://openalex.org/W2076586896","https://openalex.org/W2098680190","https://openalex.org/W4383818008","https://openalex.org/W4386774076","https://openalex.org/W1972394537","https://openalex.org/W2082103186","https://openalex.org/W2152376949"],"abstract_inverted_index":{"BACKGROUND:":[0],"GenBank":[1,67,264,276,290,315,323],"contains":[2],"over":[3],"3":[4],"million":[5],"viral":[6,47,64,176,296,335],"sequences.":[7],"The":[8,69,139,278],"National":[9],"Center":[10],"for":[11,20,45,175,190,206,215,222],"Biotechnology":[12],"Information":[13],"(NCBI)":[14],"previously":[15],"made":[16],"available":[17,204],"a":[18,53,115,123],"tool":[19,42],"validating":[21],"and":[22,62,105,154,184,209,221,268,272,280,298],"annotating":[23],"influenza":[24],"virus":[25,224,261],"sequences":[26,65,95,161],"that":[27,60,146,302],"is":[28,72,111,202],"used":[29,92,214,236],"to":[30,33,93,122,157,181,237,263,287,293,312,325],"check":[31,238],"submissions":[32,177,217,225,248,262,304],"GenBank.":[34],"Before":[35],"this":[36],"project,":[37],"there":[38],"was":[39],"no":[40],"analogous":[41],"in":[43,66],"use":[44],"non-influenza":[46],"sequence":[48,81,121,131,240,336],"submissions.":[49,68,241,337],"RESULTS:":[50],"We":[51],"developed":[52],"system":[54,71,140],"called":[55],"VADR":[56,165,201,211,232,254,321],"(Viral":[57],"Annotation":[58],"DefineR)":[59],"validates":[61],"annotates":[63],"annotation":[70,107],"based":[73,113],"on":[74,114,329],"the":[75,78,98,109,119,130,148,188,197,256,270,275,283,289,310,318],"analysis":[76],"of":[77,118,144,247,274,282,320],"input":[79],"nucleotide":[80,116],"using":[82,137],"models":[83,90],"built":[84],"from":[85,108],"curated":[86],"RefSeqs.":[87],"Hidden":[88],"Markov":[89],"are":[91,101,132],"classify":[94],"by":[96,129],"determining":[97],"RefSeq":[99,110],"they":[100],"most":[102],"similar":[103],"to,":[104],"feature":[106],"mapped":[112],"alignment":[117],"full":[120],"covariance":[124],"model.":[125],"Predicted":[126],"proteins":[127],"encoded":[128],"validated":[133],"with":[134,162,244,258,314],"nucleotide-to-protein":[135],"alignments":[136],"BLAST.":[138],"identifies":[141],"43":[142],"types":[143],"\"alerts\"":[145],"(unlike":[147],"previous":[149,198],"BLAST-based":[150],"system)":[151],"provide":[152],"deterministic":[153],"rigorous":[155],"feedback":[156],"researchers":[158,286],"who":[159],"submit":[160],"unexpected":[163],"characteristics.":[164],"has":[166,212,233],"been":[167,213,235],"integrated":[168],"into":[169],"GenBank's":[170],"submission":[171],"processing":[172],"pipeline":[173],"allowing":[174],"passing":[178],"all":[179],"tests":[180],"be":[182,250,266,306],"accepted":[183,307],"annotated":[185],"automatically,":[186],"without":[187,309],"need":[189,311],"any":[191],"human":[192],"(GenBank":[193],"indexer)":[194],"intervention.":[195],"Unlike":[196],"submission-checking":[199],"system,":[200],"freely":[203],"(https://github.com/nawrockie/vadr)":[205],"local":[207],"installation":[208],"use.":[210],"Norovirus":[216],"since":[218,226],"May":[219],"2018":[220],"Dengue":[223],"January":[227],"2019.":[228],"Since":[229],"March":[230],"2020,":[231],"also":[234],"SARS-CoV-2":[239],"Other":[242],"viruses":[243],"high":[245],"numbers":[246],"will":[249,305],"added":[251],"incrementally.":[252],"CONCLUSION:":[253],"improves":[255,269],"speed":[257],"which":[259],"non-flu":[260],"can":[265],"checked":[267],"content":[271],"quality":[273],"annotations.":[277],"availability":[279],"portability":[281],"software":[284],"allow":[285],"run":[288],"checks":[291],"prior":[292],"submitting":[294],"their":[295,303],"sequences,":[297],"thereby":[299],"gain":[300],"confidence":[301],"immediately":[308],"correspond":[313],"staff.":[316],"Reciprocally,":[317],"adoption":[319],"frees":[322],"staff":[324],"spend":[326],"more":[327],"time":[328],"services":[330],"other":[331],"than":[332],"checking":[333],"routine":[334]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":13},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":19},{"year":2022,"cited_by_count":20},{"year":2021,"cited_by_count":9},{"year":2020,"cited_by_count":7}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
