{"id":"https://openalex.org/W3215508572","doi":"https://doi.org/10.1093/nar/gkab1107","title":"VFDB 2022: a general classification scheme for bacterial virulence factors","display_name":"VFDB 2022: a general classification scheme for bacterial virulence factors","publication_year":2021,"publication_date":"2021-10-21","ids":{"openalex":"https://openalex.org/W3215508572","doi":"https://doi.org/10.1093/nar/gkab1107","mag":"3215508572","pmid":"https://pubmed.ncbi.nlm.nih.gov/34850947"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkab1107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkab1107","pdf_url":"https://academic.oup.com/nar/article-pdf/50/D1/D912/42057657/gkab1107.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":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/50/D1/D912/42057657/gkab1107.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100461773","display_name":"Bo Liu","orcid":"https://orcid.org/0009-0007-3672-4894"},"institutions":[{"id":"https://openalex.org/I200296433","display_name":"Chinese Academy of Medical Sciences & Peking Union Medical College","ror":"https://ror.org/02drdmm93","country_code":"CN","type":"education","lineage":["https://openalex.org/I200296433"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Bo Liu","raw_affiliation_strings":["NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China","institution_ids":["https://openalex.org/I200296433"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101001495","display_name":"Dandan Zheng","orcid":"https://orcid.org/0000-0002-3025-3557"},"institutions":[{"id":"https://openalex.org/I200296433","display_name":"Chinese Academy of Medical Sciences & Peking Union Medical College","ror":"https://ror.org/02drdmm93","country_code":"CN","type":"education","lineage":["https://openalex.org/I200296433"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dandan Zheng","raw_affiliation_strings":["NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China","institution_ids":["https://openalex.org/I200296433"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101976349","display_name":"Siyu Zhou","orcid":"https://orcid.org/0000-0003-4638-4137"},"institutions":[{"id":"https://openalex.org/I200296433","display_name":"Chinese Academy of Medical Sciences & Peking Union Medical College","ror":"https://ror.org/02drdmm93","country_code":"CN","type":"education","lineage":["https://openalex.org/I200296433"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Siyu Zhou","raw_affiliation_strings":["NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China","institution_ids":["https://openalex.org/I200296433"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100725291","display_name":"Lihong Chen","orcid":"https://orcid.org/0000-0002-2302-6890"},"institutions":[{"id":"https://openalex.org/I200296433","display_name":"Chinese Academy of Medical Sciences & Peking Union Medical College","ror":"https://ror.org/02drdmm93","country_code":"CN","type":"education","lineage":["https://openalex.org/I200296433"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Lihong Chen","raw_affiliation_strings":["NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China","institution_ids":["https://openalex.org/I200296433"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083088618","display_name":"Jian Yang","orcid":"https://orcid.org/0000-0002-8826-5198"},"institutions":[{"id":"https://openalex.org/I200296433","display_name":"Chinese Academy of Medical Sciences & Peking Union Medical College","ror":"https://ror.org/02drdmm93","country_code":"CN","type":"education","lineage":["https://openalex.org/I200296433"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jian Yang","raw_affiliation_strings":["NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China"],"raw_orcid":"https://orcid.org/0000-0002-8826-5198","affiliations":[{"raw_affiliation_string":"NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, P. R. China","institution_ids":["https://openalex.org/I200296433"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5083088618","https://openalex.org/A5100725291"],"corresponding_institution_ids":["https://openalex.org/I200296433"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":144.9321,"has_fulltext":true,"cited_by_count":1762,"citation_normalized_percentile":{"value":0.9999443,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"50","issue":"D1","first_page":"D912","last_page":"D917"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9994000196456909,"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"}},"topics":[{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9994000196456909,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991000294685364,"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/T10141","display_name":"Probiotics and Fermented Foods","score":0.9973000288009644,"subfield":{"id":"https://openalex.org/subfields/1106","display_name":"Food 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/biology","display_name":"Biology","score":0.7443105578422546},{"id":"https://openalex.org/keywords/virulence","display_name":"Virulence","score":0.7054595351219177},{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.5760324597358704},{"id":"https://openalex.org/keywords/virulence-factor","display_name":"Virulence factor","score":0.5608357191085815},{"id":"https://openalex.org/keywords/classification-scheme","display_name":"Classification scheme","score":0.46379098296165466},{"id":"https://openalex.org/keywords/javascript","display_name":"JavaScript","score":0.4405987858772278},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.41739511489868164},{"id":"https://openalex.org/keywords/web-application","display_name":"Web application","score":0.4127125144004822},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4080687463283539},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3558046519756317},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.35096994042396545},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.25546735525131226},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.2468794882297516},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.15064948797225952},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10484862327575684},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.07478326559066772}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7443105578422546},{"id":"https://openalex.org/C60987743","wikidata":"https://www.wikidata.org/wiki/Q1460232","display_name":"Virulence","level":3,"score":0.7054595351219177},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.5760324597358704},{"id":"https://openalex.org/C2781090273","wikidata":"https://www.wikidata.org/wiki/Q1623405","display_name":"Virulence factor","level":4,"score":0.5608357191085815},{"id":"https://openalex.org/C13460635","wikidata":"https://www.wikidata.org/wiki/Q85753676","display_name":"Classification scheme","level":2,"score":0.46379098296165466},{"id":"https://openalex.org/C544833334","wikidata":"https://www.wikidata.org/wiki/Q2005","display_name":"JavaScript","level":2,"score":0.4405987858772278},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.41739511489868164},{"id":"https://openalex.org/C118643609","wikidata":"https://www.wikidata.org/wiki/Q189210","display_name":"Web application","level":2,"score":0.4127125144004822},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4080687463283539},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3558046519756317},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.35096994042396545},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.25546735525131226},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.2468794882297516},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15064948797225952},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10484862327575684},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.07478326559066772}],"mesh":[{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","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":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","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},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/nar/gkab1107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkab1107","pdf_url":"https://academic.oup.com/nar/article-pdf/50/D1/D912/42057657/gkab1107.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":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:34850947","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34850947","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:pubmedcentral.nih.gov:8728188","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8728188","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","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/gkab1107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkab1107","pdf_url":"https://academic.oup.com/nar/article-pdf/50/D1/D912/42057657/gkab1107.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":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G34446136","display_name":"\u57fa\u4e8e\u6df1\u5ea6\u5b66\u4e60\u7684\u75c5\u539f\u83cc\u6bd2\u529b\u56e0\u5b50\u8bc6\u522b\u548c\u9884\u6d4b","funder_award_id":"31970635","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3215508572.pdf","grobid_xml":"https://content.openalex.org/works/W3215508572.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W1622925613","https://openalex.org/W1970840055","https://openalex.org/W1987031566","https://openalex.org/W2058965595","https://openalex.org/W2064409425","https://openalex.org/W2072967720","https://openalex.org/W2098621809","https://openalex.org/W2101996554","https://openalex.org/W2119497560","https://openalex.org/W2131415145","https://openalex.org/W2157748357","https://openalex.org/W2162349491","https://openalex.org/W2164248079","https://openalex.org/W2173913502","https://openalex.org/W2308145610","https://openalex.org/W2308438060","https://openalex.org/W2314548866","https://openalex.org/W2766199515","https://openalex.org/W2797413896","https://openalex.org/W2898120697","https://openalex.org/W2900102202","https://openalex.org/W2902246433","https://openalex.org/W2908954264","https://openalex.org/W2978355872","https://openalex.org/W2979800313","https://openalex.org/W3015124682","https://openalex.org/W3020253161","https://openalex.org/W3100584158","https://openalex.org/W3112600195","https://openalex.org/W3126364912","https://openalex.org/W4238018971","https://openalex.org/W6643085882","https://openalex.org/W6698458284"],"related_works":["https://openalex.org/W638577851","https://openalex.org/W2968354375","https://openalex.org/W2795601048","https://openalex.org/W2403324299","https://openalex.org/W2621177934","https://openalex.org/W4286287737","https://openalex.org/W1844100222","https://openalex.org/W3009852816","https://openalex.org/W2513223212","https://openalex.org/W42576273"],"abstract_inverted_index":{"The":[0,140],"virulence":[1,21,159],"factor":[2],"database":[3,101,177],"(VFDB,":[4],"http://www.mgc.ac.cn/VFs/)":[5],"is":[6,57],"dedicated":[7],"to":[8,31,34,174,180],"presenting":[9],"a":[10,15,64,69,93,137,165],"comprehensive":[11],"knowledge":[12],"base":[13],"and":[14,67,102,143,150],"versatile":[16],"analysis":[17,155],"platform":[18],"for":[19,71,79,152,170],"bacterial":[20,97,111,118],"factors":[22],"(VFs).":[23],"Recent":[24],"developments":[25],"in":[26,99,121,136,156],"sequencing":[27],"technologies":[28],"have":[29],"led":[30],"increasing":[32],"demands":[33],"analyze":[35],"potential":[36],"VFs":[37,53,98,112],"within":[38],"microbiome":[39],"data":[40],"that":[41],"always":[42],"consist":[43],"of":[44,52,75,96,116,158],"many":[45],"different":[46,60],"bacteria.":[47],"Nevertheless,":[48],"the":[49,72,76,100,104,122,171,176],"current":[50],"classification":[51],"from":[54,113],"various":[55,184],"pathogens":[56,119],"based":[58,85],"on":[59,86],"schemes,":[61],"which":[62],"create":[63],"chaotic":[65],"situation":[66],"form":[68],"barrier":[70],"easy":[73],"application":[74],"VFDB":[77,105,123,145,172],"dataset":[78,106,146],"future":[80,153],"panbacterial":[81,154],"metagenomic":[82],"analyses.":[83],"Therefore,":[84],"extensive":[87],"literature":[88],"mining,":[89],"we":[90,163],"recently":[91],"proposed":[92],"general":[94],"category":[95],"reorganized":[103],"accordingly.":[107],"Thus,":[108],"all":[109,181],"known":[110],"32":[114],"genera":[115],"common":[117],"collected":[120],"are":[124],"well":[125],"grouped":[126],"into":[127],"14":[128],"basal":[129],"categories":[130],"along":[131],"with":[132,183],"over":[133],"100":[134],"subcategories":[135],"hierarchical":[138],"architecture.":[139],"new":[141],"coherent":[142],"well-defined":[144],"will":[147],"be":[148],"feasible":[149],"applicable":[151],"terms":[157],"factors.":[160],"In":[161],"addition,":[162],"introduced":[164],"redesigned":[166],"JavaScript-independent":[167],"web":[168],"interface":[169],"website":[173],"make":[175],"readily":[178],"accessible":[179],"users":[182],"client":[185],"settings":[186],"worldwide.":[187]},"counts_by_year":[{"year":2026,"cited_by_count":309},{"year":2025,"cited_by_count":581},{"year":2024,"cited_by_count":537},{"year":2023,"cited_by_count":259},{"year":2022,"cited_by_count":75},{"year":2021,"cited_by_count":1}],"updated_date":"2026-08-08T07:41:36.138363","created_date":"2025-10-10T00:00:00"}