{"id":"https://openalex.org/W2809500310","doi":"https://doi.org/10.1093/bioinformatics/bty496","title":"Operon-mapper: a web server for precise operon identification in bacterial and archaeal genomes","display_name":"Operon-mapper: a web server for precise operon identification in bacterial and archaeal genomes","publication_year":2018,"publication_date":"2018-06-16","ids":{"openalex":"https://openalex.org/W2809500310","doi":"https://doi.org/10.1093/bioinformatics/bty496","mag":"2809500310","pmid":"https://pubmed.ncbi.nlm.nih.gov/29931111"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty496","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty496","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/23/4118/26676687/bty496.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/34/23/4118/26676687/bty496.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008177172","display_name":"Blanca Taboada","orcid":"https://orcid.org/0000-0003-1896-5962"},"institutions":[{"id":"https://openalex.org/I8961855","display_name":"Universidad Nacional Aut\u00f3noma de M\u00e9xico","ror":"https://ror.org/01tmp8f25","country_code":"MX","type":"education","lineage":["https://openalex.org/I8961855"]}],"countries":["MX"],"is_corresponding":false,"raw_author_name":"Blanca Taboada","raw_affiliation_strings":["Department of Developmental Genetics and Molecular Physiology, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Cuernavaca, Morelos, M\u00e9xico"],"affiliations":[{"raw_affiliation_string":"Department of Developmental Genetics and Molecular Physiology, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Cuernavaca, Morelos, M\u00e9xico","institution_ids":["https://openalex.org/I8961855"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043444040","display_name":"Karel Estrada","orcid":"https://orcid.org/0000-0002-7671-6959"},"institutions":[{"id":"https://openalex.org/I8961855","display_name":"Universidad Nacional Aut\u00f3noma de M\u00e9xico","ror":"https://ror.org/01tmp8f25","country_code":"MX","type":"education","lineage":["https://openalex.org/I8961855"]}],"countries":["MX"],"is_corresponding":false,"raw_author_name":"Karel Estrada","raw_affiliation_strings":["Department of Molecular Microbiology, Instituto de Biotecnolog\u00eda, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Cuernavaca, Morelos, M\u00e9xico"],"affiliations":[{"raw_affiliation_string":"Department of Molecular Microbiology, Instituto de Biotecnolog\u00eda, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Cuernavaca, Morelos, M\u00e9xico","institution_ids":["https://openalex.org/I8961855"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068721862","display_name":"Ricardo Ciria","orcid":null},"institutions":[{"id":"https://openalex.org/I8961855","display_name":"Universidad Nacional Aut\u00f3noma de M\u00e9xico","ror":"https://ror.org/01tmp8f25","country_code":"MX","type":"education","lineage":["https://openalex.org/I8961855"]}],"countries":["MX"],"is_corresponding":false,"raw_author_name":"Ricardo Ciria","raw_affiliation_strings":["Department of Molecular Microbiology, Instituto de Biotecnolog\u00eda, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Cuernavaca, Morelos, M\u00e9xico"],"affiliations":[{"raw_affiliation_string":"Department of Molecular Microbiology, Instituto de Biotecnolog\u00eda, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Cuernavaca, Morelos, M\u00e9xico","institution_ids":["https://openalex.org/I8961855"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5076352222","display_name":"Enrique Merino","orcid":"https://orcid.org/0000-0002-0374-0640"},"institutions":[{"id":"https://openalex.org/I8961855","display_name":"Universidad Nacional Aut\u00f3noma de M\u00e9xico","ror":"https://ror.org/01tmp8f25","country_code":"MX","type":"education","lineage":["https://openalex.org/I8961855"]}],"countries":["MX"],"is_corresponding":true,"raw_author_name":"Enrique Merino","raw_affiliation_strings":["Department of Molecular Microbiology, Instituto de Biotecnolog\u00eda, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Cuernavaca, Morelos, M\u00e9xico"],"affiliations":[{"raw_affiliation_string":"Department of Molecular Microbiology, Instituto de Biotecnolog\u00eda, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Cuernavaca, Morelos, M\u00e9xico","institution_ids":["https://openalex.org/I8961855"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5076352222"],"corresponding_institution_ids":["https://openalex.org/I8961855"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":8.6241,"has_fulltext":true,"cited_by_count":287,"citation_normalized_percentile":{"value":0.98514302,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"34","issue":"23","first_page":"4118","last_page":"4120"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"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":0.9994999766349792,"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":0.987500011920929,"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":0.9794999957084656,"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/operon","display_name":"Operon","score":0.9356953501701355},{"id":"https://openalex.org/keywords/orfs","display_name":"ORFS","score":0.7583757638931274},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6222138404846191},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6172267198562622},{"id":"https://openalex.org/keywords/l-arabinose-operon","display_name":"L-arabinose operon","score":0.5934737324714661},{"id":"https://openalex.org/keywords/gal-operon","display_name":"gal operon","score":0.5651909112930298},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5467717051506042},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4514819085597992},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.35341858863830566},{"id":"https://openalex.org/keywords/open-reading-frame","display_name":"Open reading frame","score":0.3150986433029175},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.15735524892807007},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.14813163876533508}],"concepts":[{"id":"https://openalex.org/C203075996","wikidata":"https://www.wikidata.org/wiki/Q139677","display_name":"Operon","level":4,"score":0.9356953501701355},{"id":"https://openalex.org/C2780530800","wikidata":"https://www.wikidata.org/wiki/Q7072921","display_name":"ORFS","level":5,"score":0.7583757638931274},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6222138404846191},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6172267198562622},{"id":"https://openalex.org/C69953675","wikidata":"https://www.wikidata.org/wiki/Q310284","display_name":"L-arabinose operon","level":5,"score":0.5934737324714661},{"id":"https://openalex.org/C37150987","wikidata":"https://www.wikidata.org/wiki/Q5517743","display_name":"gal operon","level":5,"score":0.5651909112930298},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5467717051506042},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4514819085597992},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.35341858863830566},{"id":"https://openalex.org/C47289529","wikidata":"https://www.wikidata.org/wiki/Q908550","display_name":"Open reading frame","level":4,"score":0.3150986433029175},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.15735524892807007},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.14813163876533508}],"mesh":[{"descriptor_ui":"D009876","descriptor_name":"Operon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009876","descriptor_name":"Operon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009876","descriptor_name":"Operon","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":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":"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":true},{"descriptor_ui":"D020745","descriptor_name":"Genome, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020745","descriptor_name":"Genome, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bty496","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty496","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/23/4118/26676687/bty496.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:29931111","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29931111","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:europepmc.org:5222101","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6247939","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6247939","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6247939","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty496","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty496","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/23/4118/26676687/bty496.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G7822954229","display_name":null,"funder_award_id":"IN202517","funder_id":"https://openalex.org/F4320335100","funder_display_name":"Direcci\u00f3n General de Asuntos del Personal Acad\u00e9mico, Universidad Nacional Aut\u00f3noma de M\u00e9xico"}],"funders":[{"id":"https://openalex.org/F4320335100","display_name":"Direcci\u00f3n General de Asuntos del Personal Acad\u00e9mico, Universidad Nacional Aut\u00f3noma de M\u00e9xico","ror":"https://ror.org/01tmp8f25"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2809500310.pdf","grobid_xml":"https://content.openalex.org/works/W2809500310.grobid-xml"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W2033984457","https://openalex.org/W2045204781","https://openalex.org/W2096093282","https://openalex.org/W2113613985","https://openalex.org/W2115413658","https://openalex.org/W2138122982","https://openalex.org/W2143485490","https://openalex.org/W2144795887","https://openalex.org/W2154139219","https://openalex.org/W2155606054","https://openalex.org/W2166406784","https://openalex.org/W2522874168","https://openalex.org/W6727186746"],"related_works":["https://openalex.org/W1907183830","https://openalex.org/W1974867906","https://openalex.org/W2086425371","https://openalex.org/W1975844473","https://openalex.org/W2089135335","https://openalex.org/W2083581795","https://openalex.org/W1608194938","https://openalex.org/W173170306","https://openalex.org/W1964685767","https://openalex.org/W1825822993"],"abstract_inverted_index":{"http://biocomputo.ibt.unam.mx/operon_mapper/.":[0]},"counts_by_year":[{"year":2026,"cited_by_count":8},{"year":2025,"cited_by_count":47},{"year":2024,"cited_by_count":52},{"year":2023,"cited_by_count":52},{"year":2022,"cited_by_count":35},{"year":2021,"cited_by_count":50},{"year":2020,"cited_by_count":28},{"year":2019,"cited_by_count":15}],"updated_date":"2026-03-10T16:38:18.471706","created_date":"2025-10-10T00:00:00"}
