{"id":"https://openalex.org/W1978441703","doi":"https://doi.org/10.1186/1471-2105-13-87","title":"PHYLOViZ: phylogenetic inference and data visualization for sequence based typing methods","display_name":"PHYLOViZ: phylogenetic inference and data visualization for sequence based typing methods","publication_year":2012,"publication_date":"2012-05-08","ids":{"openalex":"https://openalex.org/W1978441703","doi":"https://doi.org/10.1186/1471-2105-13-87","mag":"1978441703","pmid":"https://pubmed.ncbi.nlm.nih.gov/22568821"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-13-87","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-87","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-13-87.pdf","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://link.springer.com/content/pdf/10.1186/1471-2105-13-87.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110540557","display_name":"Alexandre P. Francisco","orcid":"https://orcid.org/0000-0003-4852-1641"},"institutions":[{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Alexandre P Francisco","raw_affiliation_strings":["KDBIO, INESC-ID, , R, Alves Redol 9, 1000-029 Lisboa, Portugal","CSE Dept, IST, Tech Univ of Lisbon, Av. Rovisco Pais 1, 1049-001, Lisboa, Portugal","KDBIO, INESC-ID, R. Alves Redol 9, 1000-029, Lisboa, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"KDBIO, INESC-ID, , R, Alves Redol 9, 1000-029 Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201"]},{"raw_affiliation_string":"CSE Dept, IST, Tech Univ of Lisbon, Av. Rovisco Pais 1, 1049-001, Lisboa, Portugal","institution_ids":[]},{"raw_affiliation_string":"KDBIO, INESC-ID, R. Alves Redol 9, 1000-029, Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041077284","display_name":"C\u00e1tia Vaz","orcid":"https://orcid.org/0000-0001-6074-3074"},"institutions":[{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]},{"id":"https://openalex.org/I203847022","display_name":"Instituto Polit\u00e9cnico de Lisboa","ror":"https://ror.org/04ea70f07","country_code":"PT","type":"education","lineage":["https://openalex.org/I203847022"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"C\u00e1tia Vaz","raw_affiliation_strings":["DEETC, ISEL, Poly Inst of Lisbon, R. Cons. Emdio Navarro 1, 1959-007, Lisboa, Portugal","KDBIO, INESC-ID, R. Alves Redol 9, 1000-029, Lisboa, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"DEETC, ISEL, Poly Inst of Lisbon, R. Cons. Emdio Navarro 1, 1959-007, Lisboa, Portugal","institution_ids":["https://openalex.org/I203847022"]},{"raw_affiliation_string":"KDBIO, INESC-ID, R. Alves Redol 9, 1000-029, Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025560387","display_name":"Pedro T. Monteiro","orcid":"https://orcid.org/0000-0002-7934-5495"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]},{"id":"https://openalex.org/I48057805","display_name":"Instituto Gulbenkian de Ci\u00eancia","ror":"https://ror.org/04b08hq31","country_code":"PT","type":"education","lineage":["https://openalex.org/I48057805"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Pedro T Monteiro","raw_affiliation_strings":["Inst de Microbiologia, Inst de Medicina Molecular, Fac de Medicina, Univ of Lisbon, Av. Prof. Egas Moniz, 1649-028, Lisboa, Portugal","Instituto Gulbenkian de Ci\u00eancia, 2781-901, Oeiras, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Inst de Microbiologia, Inst de Medicina Molecular, Fac de Medicina, Univ of Lisbon, Av. Prof. Egas Moniz, 1649-028, Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103"]},{"raw_affiliation_string":"Instituto Gulbenkian de Ci\u00eancia, 2781-901, Oeiras, Portugal","institution_ids":["https://openalex.org/I48057805"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079007538","display_name":"Jos\u00e9 Melo\u2010Cristino","orcid":"https://orcid.org/0000-0001-8643-1722"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 Melo-Cristino","raw_affiliation_strings":["Inst de Microbiologia, Inst de Medicina Molecular, Fac de Medicina, Univ of Lisbon, Av. Prof. Egas Moniz, 1649-028, Lisboa, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Inst de Microbiologia, Inst de Medicina Molecular, Fac de Medicina, Univ of Lisbon, Av. Prof. Egas Moniz, 1649-028, Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082344930","display_name":"M\u00e1rio Ramirez","orcid":"https://orcid.org/0000-0002-4084-6233"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"M\u00e1rio Ramirez","raw_affiliation_strings":["Inst de Microbiologia, Inst de Medicina Molecular, Fac de Medicina, Univ of Lisbon, Av. Prof. Egas Moniz, 1649-028, Lisboa, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Inst de Microbiologia, Inst de Medicina Molecular, Fac de Medicina, Univ of Lisbon, Av. Prof. Egas Moniz, 1649-028, Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5057086640","display_name":"Jo\u00e3o Andr\u00e9 Carri\u00e7o","orcid":"https://orcid.org/0000-0002-5274-2722"},"institutions":[{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]},{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":true,"raw_author_name":"Jo\u00e3o A Carri\u00e7o","raw_affiliation_strings":["Inst de Microbiologia, Inst de Medicina Molecular, Fac de Medicina, Univ of Lisbon, Av. Prof. Egas Moniz, 1649-028, Lisboa, Portugal","KDBIO, INESC-ID, R. Alves Redol 9, 1000-029, Lisboa, Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Inst de Microbiologia, Inst de Medicina Molecular, Fac de Medicina, Univ of Lisbon, Av. Prof. Egas Moniz, 1649-028, Lisboa, Portugal","institution_ids":["https://openalex.org/I141596103"]},{"raw_affiliation_string":"KDBIO, INESC-ID, R. Alves Redol 9, 1000-029, Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5057086640"],"corresponding_institution_ids":["https://openalex.org/I121345201","https://openalex.org/I141596103"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":45.7014,"has_fulltext":true,"cited_by_count":586,"citation_normalized_percentile":{"value":0.99947503,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"13","issue":"1","first_page":"87","last_page":"87"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10486","display_name":"Salmonella and Campylobacter epidemiology","score":0.23280000686645508,"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"}},"topics":[{"id":"https://openalex.org/T10486","display_name":"Salmonella and Campylobacter epidemiology","score":0.23280000686645508,"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"}},{"id":"https://openalex.org/T12232","display_name":"Yersinia bacterium, plague, ectoparasites research","score":0.06809999793767929,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10943","display_name":"Escherichia coli research studies","score":0.06270000338554382,"subfield":{"id":"https://openalex.org/subfields/1310","display_name":"Endocrinology"},"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/visualization","display_name":"Visualization","score":0.6449698805809021},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.6054542064666748},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.5925402045249939},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5533299446105957},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5507595539093018},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.528340220451355},{"id":"https://openalex.org/keywords/typing","display_name":"Typing","score":0.4521520137786865},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.43409860134124756},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.43394142389297485},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.36826127767562866},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3649844527244568},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.24853187799453735},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21060627698898315},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.0707758367061615}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6449698805809021},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.6054542064666748},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.5925402045249939},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5533299446105957},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5507595539093018},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.528340220451355},{"id":"https://openalex.org/C2781209916","wikidata":"https://www.wikidata.org/wiki/Q3215756","display_name":"Typing","level":2,"score":0.4521520137786865},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.43409860134124756},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.43394142389297485},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.36826127767562866},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3649844527244568},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.24853187799453735},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21060627698898315},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0707758367061615},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013296","descriptor_name":"Streptococcus pneumoniae","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D013296","descriptor_name":"Streptococcus pneumoniae","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D013296","descriptor_name":"Streptococcus pneumoniae","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D013296","descriptor_name":"Streptococcus pneumoniae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D013296","descriptor_name":"Streptococcus pneumoniae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D013296","descriptor_name":"Streptococcus pneumoniae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018598","descriptor_name":"Minisatellite Repeats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018598","descriptor_name":"Minisatellite Repeats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018598","descriptor_name":"Minisatellite Repeats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058885","descriptor_name":"Multilocus Sequence Typing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058885","descriptor_name":"Multilocus Sequence Typing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058885","descriptor_name":"Multilocus Sequence Typing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-13-87","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-87","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-13-87.pdf","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:22568821","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22568821","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:doaj.org/article:0633743f6f6f44de985f87ca6c0ce317","is_oa":true,"landing_page_url":"https://doaj.org/article/0633743f6f6f44de985f87ca6c0ce317","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 13, Iss 1, p 87 (2012)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2406743","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3403920","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:repositorio.ipl.pt:10400.21/1877","is_oa":true,"landing_page_url":"http://hdl.handle.net/10400.21/1877","pdf_url":null,"source":{"id":"https://openalex.org/S4306402433","display_name":"Portuguese National Funding Agency for Science, Research and Technology (RCAAP Project by FCT)","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"journal article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-13-87","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-87","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-13-87.pdf","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":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.7200000286102295}],"awards":[],"funders":[{"id":"https://openalex.org/F4320307773","display_name":"GlaxoSmithKline","ror":"https://ror.org/01xsqw823"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1978441703.pdf","grobid_xml":"https://content.openalex.org/works/W1978441703.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W1562097577","https://openalex.org/W1600348603","https://openalex.org/W1916339519","https://openalex.org/W1965680834","https://openalex.org/W1966930245","https://openalex.org/W1980030331","https://openalex.org/W1984702361","https://openalex.org/W1995321362","https://openalex.org/W1999417916","https://openalex.org/W2003960936","https://openalex.org/W2017927472","https://openalex.org/W2037409969","https://openalex.org/W2051727227","https://openalex.org/W2063301486","https://openalex.org/W2110397906","https://openalex.org/W2119144539","https://openalex.org/W2125910575","https://openalex.org/W2138199375","https://openalex.org/W2140635350","https://openalex.org/W2142503351","https://openalex.org/W2149652290","https://openalex.org/W2159675211","https://openalex.org/W2164707718","https://openalex.org/W2205222425","https://openalex.org/W2340149117","https://openalex.org/W2913132751","https://openalex.org/W4205275131"],"related_works":["https://openalex.org/W3176169626","https://openalex.org/W1606200072","https://openalex.org/W4312203868","https://openalex.org/W2069013776","https://openalex.org/W2057351134","https://openalex.org/W1979674660","https://openalex.org/W2038264393","https://openalex.org/W2059637021","https://openalex.org/W1981020211","https://openalex.org/W2013429256"],"abstract_inverted_index":{"BACKGROUND:":[0],"With":[1],"the":[2,14,47,88,119,135,152],"decrease":[3],"of":[4,60,91,138,155],"DNA":[5],"sequencing":[6],"costs,":[7],"sequence-based":[8,92],"typing":[9,93],"methods":[10,21],"are":[11,55,65,115],"rapidly":[12],"becoming":[13],"gold":[15],"standard":[16],"for":[17,28,39,117,159],"epidemiological":[18,41,53,106,141,161],"surveillance.":[19],"These":[20],"provide":[22],"reproducible":[23],"and":[24,51,64,76,104,109,162],"comparable":[25],"results":[26,126,137],"needed":[27],"a":[29,147],"global":[30],"scale":[31],"bacterial":[32],"population":[33,163],"analysis,":[34],"while":[35],"retaining":[36],"their":[37],"usefulness":[38],"local":[40],"surveys.":[42],"Online":[43],"databases":[44],"that":[45,86,150],"collect":[46],"generated":[48,98],"allelic":[49],"profiles":[50],"associated":[52,105],"data":[54,61,97,142,157],"available":[56,168],"but":[57],"this":[58],"wealth":[59],"remains":[62],"underused":[63],"frequently":[66],"poorly":[67],"annotated":[68,132],"since":[69],"no":[70],"user-friendly":[71,148],"tool":[72],"exists":[73],"to":[74],"analyze":[75],"explore":[77],"it.":[78],"RESULTS:":[79],"PHYLOViZ":[80,145],"is":[81,146,166],"platform":[82],"independent":[83],"Java":[84],"software":[85,149],"allows":[87,151],"integrated":[89],"analysis":[90,154],"methods,":[94],"including":[95],"SNP":[96],"from":[99],"whole":[100],"genome":[101],"sequence":[102],"approaches,":[103],"data.":[107],"goeBURST":[108],"its":[110],"Minimum":[111],"Spanning":[112],"Tree":[113],"expansion":[114],"used":[116],"visualizing":[118],"possible":[120],"evolutionary":[121],"relationships":[122],"between":[123],"isolates.":[124],"The":[125],"can":[127],"be":[128],"displayed":[129],"as":[130],"an":[131],"graph":[133],"overlaying":[134],"query":[136],"any":[139],"other":[140],"available.":[143],"CONCLUSIONS:":[144],"combined":[153],"multiple":[156],"sources":[158],"microbial":[160],"studies.":[164],"It":[165],"freely":[167],"at":[169],"http://www.phyloviz.net.":[170]},"counts_by_year":[{"year":2026,"cited_by_count":19},{"year":2025,"cited_by_count":23},{"year":2024,"cited_by_count":73},{"year":2023,"cited_by_count":42},{"year":2022,"cited_by_count":39},{"year":2021,"cited_by_count":57},{"year":2020,"cited_by_count":43},{"year":2019,"cited_by_count":40},{"year":2018,"cited_by_count":41},{"year":2017,"cited_by_count":63},{"year":2016,"cited_by_count":41},{"year":2015,"cited_by_count":34},{"year":2014,"cited_by_count":33},{"year":2013,"cited_by_count":29},{"year":2012,"cited_by_count":7}],"updated_date":"2026-07-25T09:21:30.201066","created_date":"2025-10-10T00:00:00"}
