{"id":"https://openalex.org/W2999081115","doi":"https://doi.org/10.1093/bioinformatics/btz962","title":"BiORSEO: a bi-objective method to predict RNA secondary structures with pseudoknots using RNA 3D modules","display_name":"BiORSEO: a bi-objective method to predict RNA secondary structures with pseudoknots using RNA 3D modules","publication_year":2020,"publication_date":"2020-01-02","ids":{"openalex":"https://openalex.org/W2999081115","doi":"https://doi.org/10.1093/bioinformatics/btz962","mag":"2999081115","pmid":"https://pubmed.ncbi.nlm.nih.gov/31913439"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz962","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz962","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/8/2451/33116830/btz962.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/36/8/2451/33116830/btz962.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041940231","display_name":"Louis Becquey","orcid":null},"institutions":[{"id":"https://openalex.org/I4210107733","display_name":"Informatique, Biologie Int\u00e9grative et Syst\u00e8mes Complexes","ror":"https://ror.org/01aqxgr98","country_code":"FR","type":"facility","lineage":["https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210107733","https://openalex.org/I88467170"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Louis Becquey","raw_affiliation_strings":["Universit\u00e9 Paris-Saclay , Univ Evry, IBISC, 91020, Evry, France"],"affiliations":[{"raw_affiliation_string":"Universit\u00e9 Paris-Saclay , Univ Evry, IBISC, 91020, Evry, France","institution_ids":["https://openalex.org/I4210107733","https://openalex.org/I277688954"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020198009","display_name":"\u00c9ric Angel","orcid":null},"institutions":[{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210107733","display_name":"Informatique, Biologie Int\u00e9grative et Syst\u00e8mes Complexes","ror":"https://ror.org/01aqxgr98","country_code":"FR","type":"facility","lineage":["https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210107733","https://openalex.org/I88467170"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Eric Angel","raw_affiliation_strings":["Universit\u00e9 Paris-Saclay , Univ Evry, IBISC, 91020, Evry, France"],"affiliations":[{"raw_affiliation_string":"Universit\u00e9 Paris-Saclay , Univ Evry, IBISC, 91020, Evry, France","institution_ids":["https://openalex.org/I4210107733","https://openalex.org/I277688954"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091493314","display_name":"Fariza Tahi","orcid":"https://orcid.org/0000-0002-3975-5668"},"institutions":[{"id":"https://openalex.org/I4210107733","display_name":"Informatique, Biologie Int\u00e9grative et Syst\u00e8mes Complexes","ror":"https://ror.org/01aqxgr98","country_code":"FR","type":"facility","lineage":["https://openalex.org/I277688954","https://openalex.org/I277688954","https://openalex.org/I4210107733","https://openalex.org/I88467170"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Fariza Tahi","raw_affiliation_strings":["Universit\u00e9 Paris-Saclay , Univ Evry, IBISC, 91020, Evry, France"],"affiliations":[{"raw_affiliation_string":"Universit\u00e9 Paris-Saclay , Univ Evry, IBISC, 91020, Evry, France","institution_ids":["https://openalex.org/I4210107733","https://openalex.org/I277688954"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5041940231","https://openalex.org/A5091493314"],"corresponding_institution_ids":["https://openalex.org/I277688954","https://openalex.org/I4210107733"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.1657,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.47716212,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":96},"biblio":{"volume":"36","issue":"8","first_page":"2451","last_page":"2457"},"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":0.9994999766349792,"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/T10604","display_name":"RNA Research and Splicing","score":0.9975000023841858,"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/computer-science","display_name":"Computer science","score":0.6226829290390015},{"id":"https://openalex.org/keywords/nucleic-acid-secondary-structure","display_name":"Nucleic acid secondary structure","score":0.6108044385910034},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.604469358921051},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5335631370544434},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.5324225425720215},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5250334739685059},{"id":"https://openalex.org/keywords/protein-secondary-structure","display_name":"Protein secondary structure","score":0.5020856857299805},{"id":"https://openalex.org/keywords/pareto-principle","display_name":"Pareto principle","score":0.45198240876197815},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4337804913520813},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.38511133193969727},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.32928580045700073},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.17376703023910522},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.12762519717216492},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12759613990783691},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.08853834867477417}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6226829290390015},{"id":"https://openalex.org/C85468374","wikidata":"https://www.wikidata.org/wiki/Q6589957","display_name":"Nucleic acid secondary structure","level":4,"score":0.6108044385910034},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.604469358921051},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5335631370544434},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.5324225425720215},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5250334739685059},{"id":"https://openalex.org/C62614982","wikidata":"https://www.wikidata.org/wiki/Q904984","display_name":"Protein secondary structure","level":2,"score":0.5020856857299805},{"id":"https://openalex.org/C137635306","wikidata":"https://www.wikidata.org/wiki/Q182667","display_name":"Pareto principle","level":2,"score":0.45198240876197815},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4337804913520813},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.38511133193969727},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.32928580045700073},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.17376703023910522},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.12762519717216492},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12759613990783691},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.08853834867477417},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0}],"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":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btz962","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz962","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/8/2451/33116830/btz962.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:31913439","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31913439","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:HAL:hal-02442640v1","is_oa":false,"landing_page_url":"https://hal.science/hal-02442640","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2020, 36 (8), pp.2451--2457. ⟨10.1093/bioinformatics/btz962⟩","raw_type":"Journal articles"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz962","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz962","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/8/2451/33116830/btz962.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":[{"display_name":"Affordable and clean energy","id":"https://metadata.un.org/sdg/7","score":0.7200000286102295}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2999081115.pdf","grobid_xml":"https://content.openalex.org/works/W2999081115.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W1672171675","https://openalex.org/W1924788487","https://openalex.org/W1982680051","https://openalex.org/W1984675364","https://openalex.org/W1988409793","https://openalex.org/W2009215595","https://openalex.org/W2023013439","https://openalex.org/W2086561953","https://openalex.org/W2101497394","https://openalex.org/W2106478835","https://openalex.org/W2117552736","https://openalex.org/W2126295301","https://openalex.org/W2134489577","https://openalex.org/W2141351700","https://openalex.org/W2147088328","https://openalex.org/W2147128567","https://openalex.org/W2150404344","https://openalex.org/W2158073100","https://openalex.org/W2162224067","https://openalex.org/W2163638609","https://openalex.org/W2225137135","https://openalex.org/W2783814264","https://openalex.org/W2795053763","https://openalex.org/W2796420015","https://openalex.org/W2919373301","https://openalex.org/W2949965166","https://openalex.org/W6637288986"],"related_works":["https://openalex.org/W3047450301","https://openalex.org/W2558432341","https://openalex.org/W1975806245","https://openalex.org/W2345156963","https://openalex.org/W1971402940","https://openalex.org/W2919479895","https://openalex.org/W2131054067","https://openalex.org/W3196523453","https://openalex.org/W2033915845","https://openalex.org/W2021868453"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2}],"updated_date":"2025-11-23T05:10:03.516525","created_date":"2025-10-10T00:00:00"}