{"id":"https://openalex.org/W2127303081","doi":"https://doi.org/10.1093/bioinformatics/bts149","title":"Large-scale analysis of conserved rare codon clusters suggests an involvement in co-translational molecular recognition events","display_name":"Large-scale analysis of conserved rare codon clusters suggests an involvement in co-translational molecular recognition events","publication_year":2012,"publication_date":"2012-03-30","ids":{"openalex":"https://openalex.org/W2127303081","doi":"https://doi.org/10.1093/bioinformatics/bts149","mag":"2127303081","pmid":"https://pubmed.ncbi.nlm.nih.gov/22467916"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts149","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts149","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/11/1438/16903607/bts149.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":null,"license_id":null,"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":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/28/11/1438/16903607/bts149.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5047216486","display_name":"Matthieu Chartier","orcid":null},"institutions":[{"id":"https://openalex.org/I135117807","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39","country_code":"CA","type":"education","lineage":["https://openalex.org/I135117807"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Matthieu Chartier","raw_affiliation_strings":["Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, 12e Avenue Nord, Sherbrooke, J1H 5N4, Qu\u00e9bec, Canada"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, 12e Avenue Nord, Sherbrooke, J1H 5N4, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I135117807"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102759372","display_name":"Francis Gaudreault","orcid":"https://orcid.org/0000-0001-5656-3118"},"institutions":[{"id":"https://openalex.org/I135117807","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39","country_code":"CA","type":"education","lineage":["https://openalex.org/I135117807"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Francis Gaudreault","raw_affiliation_strings":["Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, 12e Avenue Nord, Sherbrooke, J1H 5N4, Qu\u00e9bec, Canada"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, 12e Avenue Nord, Sherbrooke, J1H 5N4, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I135117807"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5019812910","display_name":"Rafa\u00ebl Najmanovich","orcid":"https://orcid.org/0000-0002-6971-7224"},"institutions":[{"id":"https://openalex.org/I135117807","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39","country_code":"CA","type":"education","lineage":["https://openalex.org/I135117807"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Rafael Najmanovich","raw_affiliation_strings":["Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, 12e Avenue Nord, Sherbrooke, J1H 5N4, Qu\u00e9bec, Canada"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, 12e Avenue Nord, Sherbrooke, J1H 5N4, Qu\u00e9bec, Canada","institution_ids":["https://openalex.org/I135117807"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5047216486"],"corresponding_institution_ids":["https://openalex.org/I135117807"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.342,"has_fulltext":false,"cited_by_count":51,"citation_normalized_percentile":{"value":0.80083787,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"28","issue":"11","first_page":"1438","last_page":"1445"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","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/T10521","display_name":"RNA and protein synthesis mechanisms","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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9983999729156494,"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":0.9959999918937683,"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/codon-usage-bias","display_name":"Codon usage bias","score":0.6449703574180603},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.570734441280365},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5531901717185974},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.480173259973526},{"id":"https://openalex.org/keywords/start-codon","display_name":"Start codon","score":0.4763510525226593},{"id":"https://openalex.org/keywords/conserved-sequence","display_name":"Conserved sequence","score":0.47520503401756287},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.4366976022720337},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4364456534385681},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2974536418914795},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.26910966634750366},{"id":"https://openalex.org/keywords/messenger-rna","display_name":"Messenger RNA","score":0.12725934386253357}],"concepts":[{"id":"https://openalex.org/C87253356","wikidata":"https://www.wikidata.org/wiki/Q1106472","display_name":"Codon usage bias","level":4,"score":0.6449703574180603},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.570734441280365},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5531901717185974},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.480173259973526},{"id":"https://openalex.org/C176990463","wikidata":"https://www.wikidata.org/wiki/Q1854186","display_name":"Start codon","level":4,"score":0.4763510525226593},{"id":"https://openalex.org/C199216141","wikidata":"https://www.wikidata.org/wiki/Q4995178","display_name":"Conserved sequence","level":4,"score":0.47520503401756287},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4366976022720337},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4364456534385681},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2974536418914795},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.26910966634750366},{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.12725934386253357}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D003062","descriptor_name":"Codon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003062","descriptor_name":"Codon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003062","descriptor_name":"Codon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014176","descriptor_name":"Protein Biosynthesis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014176","descriptor_name":"Protein Biosynthesis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014176","descriptor_name":"Protein Biosynthesis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bts149","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts149","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/11/1438/16903607/bts149.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22467916","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22467916","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:2666218","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3465090","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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bts149","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts149","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/11/1438/16903607/bts149.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.41999998688697815,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320316039","display_name":"Qu\u00e9bec Consortium for Drug Discovery","ror":"https://ror.org/03hhwkj37"},{"id":"https://openalex.org/F4320334618","display_name":"Fonds de Recherche du Qu\u00e9bec - Sant\u00e9","ror":"https://ror.org/02eqrsj93"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2127303081.pdf","grobid_xml":"https://content.openalex.org/works/W2127303081.grobid-xml"},"referenced_works_count":64,"referenced_works":["https://openalex.org/W255996521","https://openalex.org/W1504552716","https://openalex.org/W1589192533","https://openalex.org/W1671377823","https://openalex.org/W1969633341","https://openalex.org/W1979947584","https://openalex.org/W1986720579","https://openalex.org/W1989804676","https://openalex.org/W1990604963","https://openalex.org/W1997809760","https://openalex.org/W1999177695","https://openalex.org/W2013524732","https://openalex.org/W2015292449","https://openalex.org/W2016393945","https://openalex.org/W2017636720","https://openalex.org/W2018590530","https://openalex.org/W2022726657","https://openalex.org/W2026473446","https://openalex.org/W2029132648","https://openalex.org/W2030899314","https://openalex.org/W2035926239","https://openalex.org/W2037191141","https://openalex.org/W2038941962","https://openalex.org/W2042700625","https://openalex.org/W2054824720","https://openalex.org/W2055536178","https://openalex.org/W2057097492","https://openalex.org/W2058864686","https://openalex.org/W2060161866","https://openalex.org/W2064810946","https://openalex.org/W2065371606","https://openalex.org/W2068628419","https://openalex.org/W2074074799","https://openalex.org/W2075158468","https://openalex.org/W2080180863","https://openalex.org/W2081860615","https://openalex.org/W2086235743","https://openalex.org/W2088534163","https://openalex.org/W2091439201","https://openalex.org/W2095157299","https://openalex.org/W2097143603","https://openalex.org/W2108067237","https://openalex.org/W2110169561","https://openalex.org/W2113531969","https://openalex.org/W2114823344","https://openalex.org/W2116806350","https://openalex.org/W2120358246","https://openalex.org/W2127161280","https://openalex.org/W2130253098","https://openalex.org/W2131965976","https://openalex.org/W2141885858","https://openalex.org/W2143292066","https://openalex.org/W2144870003","https://openalex.org/W2149424410","https://openalex.org/W2157613837","https://openalex.org/W2158850411","https://openalex.org/W2164618276","https://openalex.org/W2165739018","https://openalex.org/W2416168743","https://openalex.org/W4210623056","https://openalex.org/W4230606671","https://openalex.org/W4238163457","https://openalex.org/W4249030130","https://openalex.org/W6684041852"],"related_works":["https://openalex.org/W2355920812","https://openalex.org/W2910946914","https://openalex.org/W2129444033","https://openalex.org/W1793475955","https://openalex.org/W2028165934","https://openalex.org/W2809197864","https://openalex.org/W3207681509","https://openalex.org/W2132060660","https://openalex.org/W2109672343","https://openalex.org/W2076692119"],"abstract_inverted_index":{"The":[0],"Sherlocc":[1],"program":[2],"and":[3,9],"search":[4],"interface":[5],"are":[6,10],"open":[7],"access":[8],"available":[11],"at":[12],"http://bcb.med.usherbrooke.ca":[13]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":7},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
