{"id":"https://openalex.org/W2136632285","doi":"https://doi.org/10.1093/nar/gku1223","title":"Expanded microbial genome coverage and improved protein family annotation in the COG database","display_name":"Expanded microbial genome coverage and improved protein family annotation in the COG database","publication_year":2014,"publication_date":"2014-11-26","ids":{"openalex":"https://openalex.org/W2136632285","doi":"https://doi.org/10.1093/nar/gku1223","mag":"2136632285","pmid":"https://pubmed.ncbi.nlm.nih.gov/25428365"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gku1223","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gku1223","pdf_url":"https://academic.oup.com/nar/article-pdf/43/D1/D261/7330283/gku1223.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":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":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/43/D1/D261/7330283/gku1223.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5077552473","display_name":"Michael Y. Galperin","orcid":"https://orcid.org/0000-0002-2265-5572"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Y. Galperin","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020935277","display_name":"Kira S. Makarova","orcid":"https://orcid.org/0000-0002-8174-2844"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kira S. Makarova","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012792532","display_name":"Yuri I. Wolf","orcid":"https://orcid.org/0000-0002-0247-8708"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yuri I. Wolf","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035240489","display_name":"Eugene V. Koonin","orcid":"https://orcid.org/0000-0003-3943-8299"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eugene V. Koonin","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA koonin@ncbi.nlm.nih.gov","National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA koonin@ncbi.nlm.nih.gov","institution_ids":["https://openalex.org/I4210109390"]},{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 2094, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":33.2233,"has_fulltext":false,"cited_by_count":1666,"citation_normalized_percentile":{"value":0.99876129,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"43","issue":"D1","first_page":"D261","last_page":"D269"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9987999796867371,"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":0.9983000159263611,"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/cog","display_name":"Cog","score":0.8891745805740356},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.8076613545417786},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.7784565687179565},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7646471261978149},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6001503467559814},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5481597781181335},{"id":"https://openalex.org/keywords/genome-project","display_name":"Genome project","score":0.5461148619651794},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4547712802886963},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.4488610327243805},{"id":"https://openalex.org/keywords/bacterial-genome-size","display_name":"Bacterial genome size","score":0.41088926792144775},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.38668543100357056},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.11947593092918396},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.06108883023262024}],"concepts":[{"id":"https://openalex.org/C4661277","wikidata":"https://www.wikidata.org/wiki/Q1054157","display_name":"Cog","level":2,"score":0.8891745805740356},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.8076613545417786},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7784565687179565},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7646471261978149},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6001503467559814},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5481597781181335},{"id":"https://openalex.org/C89566754","wikidata":"https://www.wikidata.org/wiki/Q2273828","display_name":"Genome project","level":4,"score":0.5461148619651794},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4547712802886963},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4488610327243805},{"id":"https://openalex.org/C3742359","wikidata":"https://www.wikidata.org/wiki/Q4839988","display_name":"Bacterial genome size","level":4,"score":0.41088926792144775},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.38668543100357056},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.11947593092918396},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.06108883023262024}],"mesh":[{"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":"D019843","descriptor_name":"Archaeal Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D019843","descriptor_name":"Archaeal Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D019843","descriptor_name":"Archaeal Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D019843","descriptor_name":"Archaeal Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019843","descriptor_name":"Archaeal Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019843","descriptor_name":"Archaeal Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064349","descriptor_name":"Genome, Microbial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064349","descriptor_name":"Genome, Microbial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064349","descriptor_name":"Genome, Microbial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gku1223","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gku1223","pdf_url":"https://academic.oup.com/nar/article-pdf/43/D1/D261/7330283/gku1223.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:25428365","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25428365","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:3354937","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4383993","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.1017.4187","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.1017.4187","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/43/D1/D261.full.pdf","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/nar/gku1223","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gku1223","pdf_url":"https://academic.oup.com/nar/article-pdf/43/D1/D261/7330283/gku1223.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":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":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":77,"referenced_works":["https://openalex.org/W11404868","https://openalex.org/W207833169","https://openalex.org/W1485044783","https://openalex.org/W1582210472","https://openalex.org/W1587558271","https://openalex.org/W1915375194","https://openalex.org/W1940773573","https://openalex.org/W1943307227","https://openalex.org/W1977304935","https://openalex.org/W1982749428","https://openalex.org/W1990453950","https://openalex.org/W1995548425","https://openalex.org/W1997272729","https://openalex.org/W1997440629","https://openalex.org/W2000024082","https://openalex.org/W2006909053","https://openalex.org/W2011700794","https://openalex.org/W2022472106","https://openalex.org/W2024708232","https://openalex.org/W2024799741","https://openalex.org/W2025020367","https://openalex.org/W2034365378","https://openalex.org/W2034545315","https://openalex.org/W2052002049","https://openalex.org/W2056876686","https://openalex.org/W2061657565","https://openalex.org/W2068652047","https://openalex.org/W2076647626","https://openalex.org/W2077369696","https://openalex.org/W2091506983","https://openalex.org/W2092027859","https://openalex.org/W2092704978","https://openalex.org/W2095480650","https://openalex.org/W2096525273","https://openalex.org/W2098686923","https://openalex.org/W2103461849","https://openalex.org/W2107580398","https://openalex.org/W2107644675","https://openalex.org/W2108649941","https://openalex.org/W2112097237","https://openalex.org/W2113005532","https://openalex.org/W2113600446","https://openalex.org/W2120172561","https://openalex.org/W2123863402","https://openalex.org/W2127784694","https://openalex.org/W2130312510","https://openalex.org/W2132926880","https://openalex.org/W2133177486","https://openalex.org/W2133666768","https://openalex.org/W2133790733","https://openalex.org/W2135726199","https://openalex.org/W2136252135","https://openalex.org/W2136327827","https://openalex.org/W2140538101","https://openalex.org/W2142428670","https://openalex.org/W2142678031","https://openalex.org/W2143681784","https://openalex.org/W2145000359","https://openalex.org/W2147526198","https://openalex.org/W2148539954","https://openalex.org/W2152861858","https://openalex.org/W2155606054","https://openalex.org/W2156978837","https://openalex.org/W2158714788","https://openalex.org/W2163732522","https://openalex.org/W2168708922","https://openalex.org/W2169929748","https://openalex.org/W2170382524","https://openalex.org/W2317418252","https://openalex.org/W2605068739","https://openalex.org/W2786774014","https://openalex.org/W4207066629","https://openalex.org/W4233614594","https://openalex.org/W4237381349","https://openalex.org/W4238718120","https://openalex.org/W4247554111","https://openalex.org/W4247927165"],"related_works":["https://openalex.org/W2162782320","https://openalex.org/W2059565715","https://openalex.org/W3111061871","https://openalex.org/W2009940763","https://openalex.org/W2114034054","https://openalex.org/W4232413416","https://openalex.org/W45826765","https://openalex.org/W1585937270","https://openalex.org/W1989895641","https://openalex.org/W2467039083"],"abstract_inverted_index":{"Microbial":[0],"genome":[1,181],"sequencing":[2],"projects":[3],"produce":[4],"numerous":[5],"sequences":[6],"of":[7,14,45,48,82,96,100,112,120,134,137,144,162,173,179,201,220,235,247,261,271,279,297],"deduced":[8],"proteins,":[9],"only":[10,30],"a":[11,59,170],"small":[12],"fraction":[13],"which":[15,78,92,280],"have":[16,240,250],"been":[17,58,241,251],"or":[18,257],"will":[19],"ever":[20],"be":[21],"studied":[22],"experimentally.":[23],"This":[24,199],"leaves":[25],"sequence":[26],"analysis":[27],"as":[28],"the":[29,94,97,101,109,118,135,138,145,163,165,174,180,196,202,206,221,227,259,269,298],"feasible":[31],"way":[32],"to":[33,39,105,108,183,195,273,283,302],"annotate":[34],"these":[35],"proteins":[36,49,277],"and":[37,84,116,129,155,169,177,191,216,243,291],"assign":[38,106],"them":[40],"tentative":[41,244],"functions.":[42],"The":[43,294],"Clusters":[44],"Orthologous":[46],"Groups":[47],"(COGs)":[50],"database":[51],"(http://www.ncbi.nlm.nih.gov/COG/),":[52],"first":[53,166],"created":[54],"in":[55,223,226,285,287],"1997,":[56],"has":[57],"popular":[60],"tool":[61,306],"for":[62,86,148,307],"functional":[63,224,245],"annotation.":[64],"Its":[65],"success":[66],"was":[67],"largely":[68],"based":[69],"on":[70,74],"(i)":[71],"its":[72],"reliance":[73],"complete":[75,186],"microbial":[76,308],"genomes,":[77],"allowed":[79],"reliable":[80],"assignment":[81,270],"orthologs":[83,115],"paralogs":[85],"most":[87],"genes;":[88],"(ii)":[89],"orthology-based":[90],"approach,":[91],"used":[93],"function(s)":[95,107,147],"characterized":[98],"member(s)":[99],"protein":[102],"family":[103],"(COG)":[104],"entire":[110],"set":[111],"carefully":[113],"identified":[114],"describe":[117],"range":[119],"potential":[121],"functions":[122,234,272],"when":[123],"there":[124],"were":[125],"more":[126],"than":[127],"one;":[128],"(iii)":[130],"careful":[131],"manual":[132],"curation":[133],"annotation":[136,153],"COGs,":[139,164],"aimed":[140],"at":[141],"detailed":[142],"prediction":[143],"biological":[146],"each":[149],"COG":[150,175,208],"while":[151],"avoiding":[152],"errors":[154],"overprediction.":[156],"Here":[157],"we":[158],"present":[159],"an":[160,211,218,304],"update":[161],"since":[167],"2003,":[168],"comprehensive":[171],"revision":[172],"annotations":[176],"expansion":[178],"coverage":[182],"include":[184],"representative":[185],"genomes":[187],"from":[188],"all":[189],"bacterial":[190],"archaeal":[192],"lineages":[193],"down":[194],"genus":[197],"level.":[198],"re-analysis":[200],"COGs":[203,239,249,299],"shows":[204],"that":[205],"original":[207],"assignments":[209,246],"had":[210],"error":[212],"rate":[213],"below":[214],"0.5%":[215],"allows":[217],"assessment":[219],"progress":[222],"genomics":[225],"past":[228],"12":[229],"years.":[230],"During":[231],"this":[232],"time,":[233],"many":[236,248,278],"previously":[237],"uncharacterized":[238],"elucidated":[242],"validated,":[252],"either":[253],"by":[254],"targeted":[255],"experiments":[256],"through":[258],"use":[260],"high-throughput":[262],"methods.":[263],"A":[264],"particularly":[265],"important":[266,305],"development":[267],"is":[268,300],"several":[274],"widespread,":[275],"conserved":[276],"turned":[281],"out":[282],"participate":[284],"translation,":[286],"particular":[288],"rRNA":[289],"maturation":[290],"tRNA":[292],"modification.":[293],"new":[295],"version":[296],"expected":[301],"become":[303],"genomics.":[309]},"counts_by_year":[{"year":2026,"cited_by_count":60},{"year":2025,"cited_by_count":139},{"year":2024,"cited_by_count":196},{"year":2023,"cited_by_count":158},{"year":2022,"cited_by_count":174},{"year":2021,"cited_by_count":227},{"year":2020,"cited_by_count":200},{"year":2019,"cited_by_count":152},{"year":2018,"cited_by_count":122},{"year":2017,"cited_by_count":125},{"year":2016,"cited_by_count":83},{"year":2015,"cited_by_count":29},{"year":2012,"cited_by_count":1}],"updated_date":"2026-07-08T08:33:18.762332","created_date":"2025-10-10T00:00:00"}
