{"id":"https://openalex.org/W2003979710","doi":"https://doi.org/10.1093/nar/gks1241","title":"OrtholugeDB: a bacterial and archaeal orthology resource for improved comparative genomic analysis","display_name":"OrtholugeDB: a bacterial and archaeal orthology resource for improved comparative genomic analysis","publication_year":2012,"publication_date":"2012-11-29","ids":{"openalex":"https://openalex.org/W2003979710","doi":"https://doi.org/10.1093/nar/gks1241","mag":"2003979710","pmid":"https://pubmed.ncbi.nlm.nih.gov/23203876"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gks1241","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks1241","pdf_url":"https://academic.oup.com/nar/article-pdf/41/D1/D366/18789067/gks1241.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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","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/41/D1/D366/18789067/gks1241.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5005752445","display_name":"Matthew D. Whiteside","orcid":null},"institutions":[{"id":"https://openalex.org/I18014758","display_name":"Simon Fraser University","ror":"https://ror.org/0213rcc28","country_code":"CA","type":"education","lineage":["https://openalex.org/I18014758"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Matthew D. Whiteside","raw_affiliation_strings":["Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada","Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6 Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada","institution_ids":["https://openalex.org/I18014758"]},{"raw_affiliation_string":"Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6 Canada","institution_ids":["https://openalex.org/I18014758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062211058","display_name":"Geoffrey L. Winsor","orcid":"https://orcid.org/0000-0001-6848-1638"},"institutions":[{"id":"https://openalex.org/I18014758","display_name":"Simon Fraser University","ror":"https://ror.org/0213rcc28","country_code":"CA","type":"education","lineage":["https://openalex.org/I18014758"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Geoffrey L. Winsor","raw_affiliation_strings":["Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada","Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6 Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada","institution_ids":["https://openalex.org/I18014758"]},{"raw_affiliation_string":"Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6 Canada","institution_ids":["https://openalex.org/I18014758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050640673","display_name":"Matthew R. Laird","orcid":"https://orcid.org/0000-0003-0967-3175"},"institutions":[{"id":"https://openalex.org/I18014758","display_name":"Simon Fraser University","ror":"https://ror.org/0213rcc28","country_code":"CA","type":"education","lineage":["https://openalex.org/I18014758"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Matthew R. Laird","raw_affiliation_strings":["Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada","Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6 Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada","institution_ids":["https://openalex.org/I18014758"]},{"raw_affiliation_string":"Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6 Canada","institution_ids":["https://openalex.org/I18014758"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050197558","display_name":"Fiona S. L. Brinkman","orcid":"https://orcid.org/0000-0002-0584-4099"},"institutions":[{"id":"https://openalex.org/I18014758","display_name":"Simon Fraser University","ror":"https://ror.org/0213rcc28","country_code":"CA","type":"education","lineage":["https://openalex.org/I18014758"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Fiona S. L. Brinkman","raw_affiliation_strings":["Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada","Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6 Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada","institution_ids":["https://openalex.org/I18014758"]},{"raw_affiliation_string":"Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6 Canada","institution_ids":["https://openalex.org/I18014758"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I18014758"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.3836,"has_fulltext":true,"cited_by_count":79,"citation_normalized_percentile":{"value":0.88672207,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"41","issue":"D1","first_page":"D366","last_page":"D376"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9941999912261963,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9825000166893005,"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/biology","display_name":"Biology","score":0.9178731441497803},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.7153815031051636},{"id":"https://openalex.org/keywords/comparative-genomics","display_name":"Comparative genomics","score":0.6145284175872803},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.597321629524231},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.5802193880081177},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.510365903377533},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.4803265631198883},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.47383245825767517},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.4733707308769226},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.4659045338630676},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.4328770041465759},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.08232954144477844}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.9178731441497803},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7153815031051636},{"id":"https://openalex.org/C105176652","wikidata":"https://www.wikidata.org/wiki/Q1147112","display_name":"Comparative genomics","level":5,"score":0.6145284175872803},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.597321629524231},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.5802193880081177},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.510365903377533},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4803265631198883},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.47383245825767517},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4733707308769226},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.4659045338630676},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.4328770041465759},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.08232954144477844}],"mesh":[{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","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":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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, 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":false},{"descriptor_ui":"D019766","descriptor_name":"Genes, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019766","descriptor_name":"Genes, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019766","descriptor_name":"Genes, Archaeal","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":"D020745","descriptor_name":"Genome, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020745","descriptor_name":"Genome, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020745","descriptor_name":"Genome, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","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}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gks1241","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks1241","pdf_url":"https://academic.oup.com/nar/article-pdf/41/D1/D366/18789067/gks1241.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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:23203876","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23203876","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:europepmc.org:2536451","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC3531125","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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3531125","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3531125","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gks1241","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks1241","pdf_url":"https://academic.oup.com/nar/article-pdf/41/D1/D366/18789067/gks1241.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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.46000000834465027,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320310787","display_name":"Genome Canada","ror":"https://ror.org/029s29983"},{"id":"https://openalex.org/F4320319965","display_name":"Michael Smith Health Research BC","ror":"https://ror.org/020x39229"},{"id":"https://openalex.org/F4320319973","display_name":"Genome British Columbia","ror":"https://ror.org/03gne5057"},{"id":"https://openalex.org/F4320334593","display_name":"Natural Sciences and Engineering Research Council of Canada","ror":"https://ror.org/01h531d29"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2003979710.pdf","grobid_xml":"https://content.openalex.org/works/W2003979710.grobid-xml"},"referenced_works_count":50,"referenced_works":["https://openalex.org/W1542595575","https://openalex.org/W1968637495","https://openalex.org/W1977027195","https://openalex.org/W1984345785","https://openalex.org/W1986367828","https://openalex.org/W2008856488","https://openalex.org/W2009234149","https://openalex.org/W2013067928","https://openalex.org/W2027745562","https://openalex.org/W2042160423","https://openalex.org/W2048448217","https://openalex.org/W2048878566","https://openalex.org/W2075151670","https://openalex.org/W2082202339","https://openalex.org/W2096525273","https://openalex.org/W2097107919","https://openalex.org/W2097485877","https://openalex.org/W2098676247","https://openalex.org/W2103017472","https://openalex.org/W2107644675","https://openalex.org/W2118769225","https://openalex.org/W2120817193","https://openalex.org/W2120864016","https://openalex.org/W2120987877","https://openalex.org/W2121947440","https://openalex.org/W2122613768","https://openalex.org/W2134396951","https://openalex.org/W2135957668","https://openalex.org/W2136095103","https://openalex.org/W2136930778","https://openalex.org/W2137057090","https://openalex.org/W2142237411","https://openalex.org/W2143335572","https://openalex.org/W2143592941","https://openalex.org/W2145100181","https://openalex.org/W2145189015","https://openalex.org/W2146841526","https://openalex.org/W2151859071","https://openalex.org/W2154364831","https://openalex.org/W2155954664","https://openalex.org/W2158714788","https://openalex.org/W2163783674","https://openalex.org/W2165335121","https://openalex.org/W2167188257","https://openalex.org/W2168048337","https://openalex.org/W2169043568","https://openalex.org/W2170382524","https://openalex.org/W2182404474","https://openalex.org/W4212865600","https://openalex.org/W4250297812"],"related_works":["https://openalex.org/W2174809885","https://openalex.org/W2883025420","https://openalex.org/W2057191541","https://openalex.org/W2949296710","https://openalex.org/W1992658754","https://openalex.org/W2111939425","https://openalex.org/W2065083790","https://openalex.org/W2604174992","https://openalex.org/W2375383082","https://openalex.org/W1974895455"],"abstract_inverted_index":{"Prediction":[0],"of":[1,8,14,34,43,81,88,104,184],"orthologs":[2,20,176],"(homologous":[3],"genes":[4,155],"that":[5,31,40],"diverged":[6,32],"because":[7,33],"speciation)":[9],"is":[10,46],"an":[11],"integral":[12],"component":[13],"many":[15],"comparative":[16,196],"genomics":[17],"methods.":[18],"Although":[19],"are":[21,50],"more":[22,74,139,173,191],"likely":[23],"to":[24,72,156],"have":[25,38],"similar":[26,167],"function":[27],"versus":[28],"paralogs":[29],"(genes":[30],"duplication),":[35],"recent":[36],"studies":[37],"shown":[39],"their":[41],"degree":[42],"functional":[44],"conservation":[45],"variable.":[47],"Also,":[48],"there":[49],"inherent":[51],"problems":[52],"with":[53,134,166,177],"several":[54],"large-scale":[55,200],"ortholog":[56,76,112,151,201],"prediction":[57],"approaches.":[58],"To":[59],"address":[60],"these":[61],"issues,":[62],"we":[63,99],"previously":[64],"developed":[65],"Ortholuge,":[66],"which":[67],"uses":[68],"phylogenetic":[69],"distance":[70],"ratios":[71],"provide":[73],"precise":[75,140],"assessments":[77],"for":[78,114],"a":[79,181],"set":[80],"predicted":[82],"orthologs.":[83],"However,":[84],"the":[85,102,138],"original":[86],"version":[87],"Ortholuge":[89,141,165],"required":[90],"manual":[91],"intervention":[92],"and":[93,118,149,190,194,199],"was":[94],"not":[95],"easily":[96],"accessible;":[97],"therefore,":[98],"now":[100],"report":[101],"development":[103],"OrtholugeDB,":[105],"available":[106],"online":[107],"at":[108],"http://www.pathogenomics.sfu.ca/ortholugedb.":[109],"OrtholugeDB":[110,144,187],"provides":[111],"predictions":[113],"completely":[115],"sequenced":[116],"bacterial":[117,193],"archaeal":[119,195],"genomes":[120],"from":[121,153],"NCBI":[122],"based":[123],"on":[124],"reciprocal":[125],"best":[126],"Basic":[127],"Local":[128],"Alignment":[129],"Search":[130],"Tool":[131],"hits,":[132],"supplemented":[133],"further":[135],"evaluation":[136],"by":[137],"method.":[142],"The":[143],"web":[145],"interface":[146],"facilitates":[147,188],"user-friendly":[148],"flexible":[150,159],"analysis,":[152],"single":[154],"genomes,":[157],"plus":[158],"data":[160],"download":[161],"options.":[162],"We":[163],"compare":[164],"methods,":[168],"showing":[169],"how":[170],"it":[171],"may":[172],"consistently":[174],"identify":[175],"conserved":[178],"features":[179],"across":[180],"wide":[182],"range":[183],"taxonomic":[185],"distances.":[186],"rapid,":[189],"accurate,":[192],"genomic":[197],"analysis":[198],"predictions.":[202]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":9},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":13},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":10},{"year":2013,"cited_by_count":2}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}