{"id":"https://openalex.org/W2133883537","doi":"https://doi.org/10.1093/nar/29.1.133","title":"VIDA: a virus database system for the organization of animal virus genome open reading frames","display_name":"VIDA: a virus database system for the organization of animal virus genome open reading frames","publication_year":2001,"publication_date":"2001-01-01","ids":{"openalex":"https://openalex.org/W2133883537","doi":"https://doi.org/10.1093/nar/29.1.133","mag":"2133883537","pmid":"https://pubmed.ncbi.nlm.nih.gov/11125070"},"language":"en","primary_location":{"id":"doi:10.1093/nar/29.1.133","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/29.1.133","pdf_url":"https://academic.oup.com/nar/article-pdf/29/1/133/9905104/290133.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/nar/article-pdf/29/1/133/9905104/290133.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062672403","display_name":"M. Mar Alb\u00e0","orcid":"https://orcid.org/0000-0002-7963-7375"},"institutions":[{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"M. M. Alba","raw_affiliation_strings":["Wohl Virion Centre, Department of Immunology and Molecular Pathology, Windeyer Institute of Medical Sciences, University College London, London, UK"],"affiliations":[{"raw_affiliation_string":"Wohl Virion Centre, Department of Immunology and Molecular Pathology, Windeyer Institute of Medical Sciences, University College London, London, UK","institution_ids":["https://openalex.org/I45129253"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5062672403"],"corresponding_institution_ids":["https://openalex.org/I45129253"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":null,"fwci":4.3917,"has_fulltext":false,"cited_by_count":39,"citation_normalized_percentile":{"value":0.93903196,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"29","issue":"1","first_page":"133","last_page":"136"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11495","display_name":"Animal Virus Infections Studies","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1103","display_name":"Animal Science and Zoology"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11495","display_name":"Animal Virus Infections Studies","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1103","display_name":"Animal Science and Zoology"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10625","display_name":"Herpesvirus Infections and Treatments","score":0.9997000098228455,"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/T10976","display_name":"Viral gastroenteritis research and epidemiology","score":0.9995999932289124,"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/orfs","display_name":"ORFS","score":0.933914303779602},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.894294261932373},{"id":"https://openalex.org/keywords/genbank","display_name":"GenBank","score":0.8088638782501221},{"id":"https://openalex.org/keywords/open-reading-frame","display_name":"Open reading frame","score":0.723358154296875},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5770280361175537},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5139884352684021},{"id":"https://openalex.org/keywords/virus","display_name":"Virus","score":0.4539383351802826},{"id":"https://openalex.org/keywords/virus-classification","display_name":"Virus classification","score":0.42384153604507446},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.382566899061203},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.38065284490585327},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.28535327315330505},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20500323176383972}],"concepts":[{"id":"https://openalex.org/C2780530800","wikidata":"https://www.wikidata.org/wiki/Q7072921","display_name":"ORFS","level":5,"score":0.933914303779602},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.894294261932373},{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.8088638782501221},{"id":"https://openalex.org/C47289529","wikidata":"https://www.wikidata.org/wiki/Q908550","display_name":"Open reading frame","level":4,"score":0.723358154296875},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5770280361175537},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5139884352684021},{"id":"https://openalex.org/C2522874641","wikidata":"https://www.wikidata.org/wiki/Q808","display_name":"Virus","level":2,"score":0.4539383351802826},{"id":"https://openalex.org/C20850961","wikidata":"https://www.wikidata.org/wiki/Q478216","display_name":"Virus classification","level":4,"score":0.42384153604507446},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.382566899061203},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.38065284490585327},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.28535327315330505},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20500323176383972},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007255","descriptor_name":"Information Services","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007255","descriptor_name":"Information Services","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007255","descriptor_name":"Information Services","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014764","descriptor_name":"Viral Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014764","descriptor_name":"Viral Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014764","descriptor_name":"Viral Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"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},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/nar/29.1.133","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/29.1.133","pdf_url":"https://academic.oup.com/nar/article-pdf/29/1/133/9905104/290133.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:11125070","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/11125070","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:eprints.ucl.ac.uk.OAI2:53946","is_oa":false,"landing_page_url":"http://discovery.ucl.ac.uk/53946/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400024","display_name":"UCL Discovery (University College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I45129253","host_organization_name":"University College London","host_organization_lineage":["https://openalex.org/I45129253"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"   Nucleic Acids Research , 29  (1)   133 - 136.   (2001)      ","raw_type":"Article"},{"id":"pmh:oai:europepmc.org:280228","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC29831","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:29831","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/29831","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":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/29.1.133","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/29.1.133","pdf_url":"https://academic.oup.com/nar/article-pdf/29/1/133/9905104/290133.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education","score":0.5600000023841858}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2133883537.pdf","grobid_xml":"https://content.openalex.org/works/W2133883537.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W202001057","https://openalex.org/W2017711291","https://openalex.org/W2055043387","https://openalex.org/W2085832134","https://openalex.org/W2096004078","https://openalex.org/W2096525273","https://openalex.org/W2135385301","https://openalex.org/W2139621307","https://openalex.org/W2150215096","https://openalex.org/W2158714788","https://openalex.org/W2165567081","https://openalex.org/W2181908191","https://openalex.org/W2242225048","https://openalex.org/W2558766452","https://openalex.org/W4229706141","https://openalex.org/W4230903726","https://openalex.org/W4247964656"],"related_works":["https://openalex.org/W2017477982","https://openalex.org/W1978801575","https://openalex.org/W2029252138","https://openalex.org/W4306784270","https://openalex.org/W2101899141","https://openalex.org/W3031046715","https://openalex.org/W2017335389","https://openalex.org/W2358544099","https://openalex.org/W1976390578","https://openalex.org/W2072439611"],"abstract_inverted_index":{"VIDA":[0,22],"is":[1,101],"a":[2,69],"new":[3],"virus":[4],"database":[5,100],"that":[6,89],"organizes":[7],"open":[8],"reading":[9],"frames":[10],"(ORFs)":[11],"from":[12,18,26],"partial":[13],"and":[14,31,60,72,79,106],"complete":[15],"genomic":[16],"sequences":[17,25],"animal":[19],"viruses.":[20],"Currently":[21],"includes":[23],"all":[24,76],"GenBank":[27],"for":[28,75,103],"Herpesviridae,":[29],"Coronaviridae":[30],"Arteriviridae.":[32],"The":[33,99],"ORFs":[34],"are":[35,42,58,90],"organized":[36],"into":[37],"homologous":[38],"protein":[39,80,87],"families,":[40],"which":[41],"identified":[43,59],"on":[44],"the":[45,77,83,93],"basis":[46],"of":[47,54],"sequence":[48,52,65,107],"similarity":[49],"relationships.":[50],"Conserved":[51],"regions":[53],"potential":[55],"functional":[56,73],"importance":[57],"can":[61],"be":[62],"retrieved":[63],"as":[64],"alignments.":[66],"We":[67],"use":[68],"controlled":[70],"taxonomical":[71],"classification":[74],"proteins":[78],"families":[81,94],"in":[82],"database.":[84],"When":[85],"available,":[86],"structures":[88],"related":[91],"to":[92],"have":[95],"also":[96],"been":[97],"included.":[98],"available":[102],"online":[104],"search":[105],"information":[108],"retrieval":[109],"at":[110],"http://www.biochem.ucl.ac.uk/bsm/virus_database/":[111],"VIDA.html.":[112]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
