{"id":"https://openalex.org/W4380370421","doi":"https://doi.org/10.1093/bioinformatics/btad380","title":"Dicodon-based measures for modeling gene expression","display_name":"Dicodon-based measures for modeling gene expression","publication_year":2023,"publication_date":"2023-06-01","ids":{"openalex":"https://openalex.org/W4380370421","doi":"https://doi.org/10.1093/bioinformatics/btad380","pmid":"https://pubmed.ncbi.nlm.nih.gov/37307098"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btad380","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad380","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad380/50683411/btad380.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad380/50683411/btad380.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5026016833","display_name":"Andr\u00e9s M. Alonso","orcid":"https://orcid.org/0000-0002-2896-7147"},"institutions":[{"id":"https://openalex.org/I151201029","display_name":"Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas","ror":"https://ror.org/03cqe8w59","country_code":"AR","type":"government","lineage":["https://openalex.org/I151201029","https://openalex.org/I4210123736","https://openalex.org/I4387155568"]},{"id":"https://openalex.org/I228664971","display_name":"National University of General San Mart\u00edn","ror":"https://ror.org/00v29jp57","country_code":"AR","type":"education","lineage":["https://openalex.org/I228664971"]},{"id":"https://openalex.org/I4210159438","display_name":"Instituto Tecnol\u00f3gico de Chascom\u00fas","ror":"https://ror.org/04qzr9r50","country_code":"AR","type":"facility","lineage":["https://openalex.org/I151201029","https://openalex.org/I228664971","https://openalex.org/I4210123736","https://openalex.org/I4210159438","https://openalex.org/I4387155568"]},{"id":"https://openalex.org/I4210138160","display_name":"Centro Cient\u00edfico Tecnol\u00f3gico - La Plata","ror":"https://ror.org/03qan4b12","country_code":"AR","type":"facility","lineage":["https://openalex.org/I151201029","https://openalex.org/I4210123736","https://openalex.org/I4210138160","https://openalex.org/I4387155568"]}],"countries":["AR"],"is_corresponding":true,"raw_author_name":"Andres M Alonso","raw_affiliation_strings":["CCT-La Plata, CONICET, Calle 8 N\u00ba 1467, La Plata, B1904CMC Provincia de Buenos Aires , Argentina","Instituto Tecnol\u00f3gico Chascom\u00fas (INTECH), CONICET-UNSAM, Intendente Marino km 8.2, Chascom\u00fas , 7130 Provincia de Buenos Aires, Argentina"],"affiliations":[{"raw_affiliation_string":"CCT-La Plata, CONICET, Calle 8 N\u00ba 1467, La Plata, B1904CMC Provincia de Buenos Aires , Argentina","institution_ids":["https://openalex.org/I4210138160"]},{"raw_affiliation_string":"Instituto Tecnol\u00f3gico Chascom\u00fas (INTECH), CONICET-UNSAM, Intendente Marino km 8.2, Chascom\u00fas , 7130 Provincia de Buenos Aires, Argentina","institution_ids":["https://openalex.org/I4210159438","https://openalex.org/I151201029","https://openalex.org/I228664971"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083474100","display_name":"Luis Diambra","orcid":"https://orcid.org/0000-0001-8052-4880"},"institutions":[{"id":"https://openalex.org/I4210138160","display_name":"Centro Cient\u00edfico Tecnol\u00f3gico - La Plata","ror":"https://ror.org/03qan4b12","country_code":"AR","type":"facility","lineage":["https://openalex.org/I151201029","https://openalex.org/I4210123736","https://openalex.org/I4210138160","https://openalex.org/I4387155568"]}],"countries":["AR"],"is_corresponding":false,"raw_author_name":"Luis Diambra","raw_affiliation_strings":["CCT-La Plata, CONICET, Calle 8 N\u00ba 1467, La Plata, B1904CMC Provincia de Buenos Aires , Argentina","Centro Regional de Estudios Gen\u00f3micos, FCE-UNLP, Blvd 120 N\u2218 1461, La Plata , 1900 Provincia de Buenos Aires, Argentina"],"affiliations":[{"raw_affiliation_string":"CCT-La Plata, CONICET, Calle 8 N\u00ba 1467, La Plata, B1904CMC Provincia de Buenos Aires , Argentina","institution_ids":["https://openalex.org/I4210138160"]},{"raw_affiliation_string":"Centro Regional de Estudios Gen\u00f3micos, FCE-UNLP, Blvd 120 N\u2218 1461, La Plata , 1900 Provincia de Buenos Aires, Argentina","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5026016833"],"corresponding_institution_ids":["https://openalex.org/I151201029","https://openalex.org/I228664971","https://openalex.org/I4210138160","https://openalex.org/I4210159438"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.263,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.79622048,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":98},"biblio":{"volume":"39","issue":"6","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":1.0,"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":1.0,"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/T11482","display_name":"RNA modifications and cancer","score":0.9995999932289124,"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/T10604","display_name":"RNA Research and Splicing","score":0.9993000030517578,"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":0.6835623979568481},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.660597562789917},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5251868963241577},{"id":"https://openalex.org/keywords/scripting-language","display_name":"Scripting language","score":0.509842574596405},{"id":"https://openalex.org/keywords/translation","display_name":"Translation (biology)","score":0.46648740768432617},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.44995999336242676},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4272735118865967},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.36836642026901245},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.36473867297172546},{"id":"https://openalex.org/keywords/messenger-rna","display_name":"Messenger RNA","score":0.29083529114723206},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.13473165035247803},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.12851423025131226}],"concepts":[{"id":"https://openalex.org/C87253356","wikidata":"https://www.wikidata.org/wiki/Q1106472","display_name":"Codon usage bias","level":4,"score":0.6835623979568481},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.660597562789917},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5251868963241577},{"id":"https://openalex.org/C61423126","wikidata":"https://www.wikidata.org/wiki/Q187432","display_name":"Scripting language","level":2,"score":0.509842574596405},{"id":"https://openalex.org/C149364088","wikidata":"https://www.wikidata.org/wiki/Q185917","display_name":"Translation (biology)","level":4,"score":0.46648740768432617},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.44995999336242676},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4272735118865967},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.36836642026901245},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.36473867297172546},{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.29083529114723206},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.13473165035247803},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.12851423025131226}],"mesh":[{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btad380","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad380","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad380/50683411/btad380.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37307098","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37307098","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:pubmedcentral.nih.gov:10287933","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10287933","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10287933/pdf/btad380.pdf","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btad380","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad380","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad380/50683411/btad380.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321594","display_name":"Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas","ror":"https://ror.org/03cqe8w59"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4380370421.pdf"},"referenced_works_count":66,"referenced_works":["https://openalex.org/W1603411458","https://openalex.org/W1971453673","https://openalex.org/W1986720579","https://openalex.org/W1987853052","https://openalex.org/W1994474166","https://openalex.org/W2001674944","https://openalex.org/W2004674004","https://openalex.org/W2018590530","https://openalex.org/W2019421676","https://openalex.org/W2023622324","https://openalex.org/W2036799174","https://openalex.org/W2037843515","https://openalex.org/W2047521874","https://openalex.org/W2062559368","https://openalex.org/W2063504601","https://openalex.org/W2066829062","https://openalex.org/W2069385106","https://openalex.org/W2070163065","https://openalex.org/W2072499238","https://openalex.org/W2080667183","https://openalex.org/W2081746271","https://openalex.org/W2081747108","https://openalex.org/W2095805667","https://openalex.org/W2096294444","https://openalex.org/W2100364553","https://openalex.org/W2104318279","https://openalex.org/W2106945333","https://openalex.org/W2114671362","https://openalex.org/W2114746176","https://openalex.org/W2120376302","https://openalex.org/W2124439695","https://openalex.org/W2125076649","https://openalex.org/W2138077148","https://openalex.org/W2142418779","https://openalex.org/W2146312730","https://openalex.org/W2148734328","https://openalex.org/W2151373788","https://openalex.org/W2151951677","https://openalex.org/W2152044612","https://openalex.org/W2154568785","https://openalex.org/W2157441710","https://openalex.org/W2157613837","https://openalex.org/W2158503240","https://openalex.org/W2166187656","https://openalex.org/W2167868583","https://openalex.org/W2282841281","https://openalex.org/W2466333954","https://openalex.org/W2501872261","https://openalex.org/W2592510355","https://openalex.org/W2596705354","https://openalex.org/W2599126220","https://openalex.org/W2741262298","https://openalex.org/W2762868004","https://openalex.org/W2793041647","https://openalex.org/W2921605204","https://openalex.org/W2921995809","https://openalex.org/W2941046412","https://openalex.org/W2963289339","https://openalex.org/W2999177236","https://openalex.org/W3091866222","https://openalex.org/W3152698768","https://openalex.org/W3208598850","https://openalex.org/W4229000423","https://openalex.org/W4229034516","https://openalex.org/W4286005114","https://openalex.org/W6761014608"],"related_works":["https://openalex.org/W3023169329","https://openalex.org/W4389470870","https://openalex.org/W2782165897","https://openalex.org/W1582950852","https://openalex.org/W4300438041","https://openalex.org/W2054104202","https://openalex.org/W2139703748","https://openalex.org/W2761254753","https://openalex.org/W1024825291","https://openalex.org/W2188981919"],"abstract_inverted_index":{"Scripts,":[0],"implemented":[1],"in":[2],"Python,":[3],"are":[4],"freely":[5],"available":[6],"for":[7],"download":[8],"at":[9],"https://zenodo.org/record/7738276#.ZBIDBtLMIdU.":[10]},"counts_by_year":[{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":3}],"updated_date":"2026-03-11T14:59:36.786465","created_date":"2025-10-10T00:00:00"}
