{"id":"https://openalex.org/W2146989994","doi":"https://doi.org/10.1093/bioinformatics/btt701","title":"RNASurface: fast and accurate detection of locally optimal potentially structured RNA segments","display_name":"RNASurface: fast and accurate detection of locally optimal potentially structured RNA segments","publication_year":2013,"publication_date":"2013-11-28","ids":{"openalex":"https://openalex.org/W2146989994","doi":"https://doi.org/10.1093/bioinformatics/btt701","mag":"2146989994","pmid":"https://pubmed.ncbi.nlm.nih.gov/24292360"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt701","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt701","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/4/457/48915773/bioinformatics_30_4_457.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/30/4/457/48915773/bioinformatics_30_4_457.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060129715","display_name":"Ruslan Soldatov","orcid":"https://orcid.org/0000-0002-5670-5881"},"institutions":[{"id":"https://openalex.org/I19880235","display_name":"Lomonosov Moscow State University","ror":"https://ror.org/010pmpe69","country_code":"RU","type":"education","lineage":["https://openalex.org/I19880235"]},{"id":"https://openalex.org/I4210107660","display_name":"Institute for Information Transmission Problems","ror":"https://ror.org/013w2d378","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210097085","https://openalex.org/I4210107660"]}],"countries":["RU"],"is_corresponding":true,"raw_author_name":"Ruslan A. Soldatov","raw_affiliation_strings":["1 Institute for Information Transmission Problems (the Kharkevich Institute), Russian Academy of Sciences, 19 Bolshoy Karetny per., Moscow 127994 and 2Department of Bioengineering and Bioinformatics, Moscow State University, 1-73 Vorobyevy Gory, Moscow 119991, Russia"],"affiliations":[{"raw_affiliation_string":"1 Institute for Information Transmission Problems (the Kharkevich Institute), Russian Academy of Sciences, 19 Bolshoy Karetny per., Moscow 127994 and 2Department of Bioengineering and Bioinformatics, Moscow State University, 1-73 Vorobyevy Gory, Moscow 119991, Russia","institution_ids":["https://openalex.org/I4210107660","https://openalex.org/I19880235"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101701135","display_name":"S.V. Vinogradova","orcid":"https://orcid.org/0000-0002-5419-8812"},"institutions":[{"id":"https://openalex.org/I4210107660","display_name":"Institute for Information Transmission Problems","ror":"https://ror.org/013w2d378","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210097085","https://openalex.org/I4210107660"]},{"id":"https://openalex.org/I19880235","display_name":"Lomonosov Moscow State University","ror":"https://ror.org/010pmpe69","country_code":"RU","type":"education","lineage":["https://openalex.org/I19880235"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Svetlana V. Vinogradova","raw_affiliation_strings":["1 Institute for Information Transmission Problems (the Kharkevich Institute), Russian Academy of Sciences, 19 Bolshoy Karetny per., Moscow 127994 and 2Department of Bioengineering and Bioinformatics, Moscow State University, 1-73 Vorobyevy Gory, Moscow 119991, Russia"],"affiliations":[{"raw_affiliation_string":"1 Institute for Information Transmission Problems (the Kharkevich Institute), Russian Academy of Sciences, 19 Bolshoy Karetny per., Moscow 127994 and 2Department of Bioengineering and Bioinformatics, Moscow State University, 1-73 Vorobyevy Gory, Moscow 119991, Russia","institution_ids":["https://openalex.org/I4210107660","https://openalex.org/I19880235"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048046634","display_name":"Andrey A. Mironov","orcid":"https://orcid.org/0000-0003-2888-8358"},"institutions":[{"id":"https://openalex.org/I4210107660","display_name":"Institute for Information Transmission Problems","ror":"https://ror.org/013w2d378","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210097085","https://openalex.org/I4210107660"]},{"id":"https://openalex.org/I19880235","display_name":"Lomonosov Moscow State University","ror":"https://ror.org/010pmpe69","country_code":"RU","type":"education","lineage":["https://openalex.org/I19880235"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Andrey A. Mironov","raw_affiliation_strings":["1 Institute for Information Transmission Problems (the Kharkevich Institute), Russian Academy of Sciences, 19 Bolshoy Karetny per., Moscow 127994 and 2Department of Bioengineering and Bioinformatics, Moscow State University, 1-73 Vorobyevy Gory, Moscow 119991, Russia"],"affiliations":[{"raw_affiliation_string":"1 Institute for Information Transmission Problems (the Kharkevich Institute), Russian Academy of Sciences, 19 Bolshoy Karetny per., Moscow 127994 and 2Department of Bioengineering and Bioinformatics, Moscow State University, 1-73 Vorobyevy Gory, Moscow 119991, Russia","institution_ids":["https://openalex.org/I4210107660","https://openalex.org/I19880235"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5060129715"],"corresponding_institution_ids":["https://openalex.org/I19880235","https://openalex.org/I4210107660"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.7311,"has_fulltext":true,"cited_by_count":26,"citation_normalized_percentile":{"value":0.71853598,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"30","issue":"4","first_page":"457","last_page":"463"},"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/T10015","display_name":"Genomics and Phylogenetic Studies","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"}},{"id":"https://openalex.org/T11482","display_name":"RNA modifications and cancer","score":0.9980999827384949,"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":0.6483784914016724},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6294757127761841},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.6246193647384644},{"id":"https://openalex.org/keywords/non-coding-rna","display_name":"Non-coding RNA","score":0.6085547208786011},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.6010638475418091},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5857596397399902},{"id":"https://openalex.org/keywords/coding","display_name":"Coding (social sciences)","score":0.5768099427223206},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.4342663586139679},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.34763163328170776},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.33186155557632446},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.301899254322052},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23011556267738342},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.14614257216453552},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.13036349415779114}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6483784914016724},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6294757127761841},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.6246193647384644},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.6085547208786011},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.6010638475418091},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5857596397399902},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.5768099427223206},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.4342663586139679},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.34763163328170776},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.33186155557632446},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.301899254322052},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23011556267738342},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.14614257216453552},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13036349415779114},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001412","descriptor_name":"Bacillus subtilis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001412","descriptor_name":"Bacillus subtilis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001412","descriptor_name":"Bacillus subtilis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"D009690","descriptor_name":"Nucleic Acid Conformation","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":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btt701","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt701","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/4/457/48915773/bioinformatics_30_4_457.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:24292360","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24292360","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}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btt701","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt701","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/4/457/48915773/bioinformatics_30_4_457.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":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321079","display_name":"Russian Foundation for Basic Research","ror":"https://ror.org/02mh1ke95"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2146989994.pdf","grobid_xml":"https://content.openalex.org/works/W2146989994.grobid-xml"},"referenced_works_count":48,"referenced_works":["https://openalex.org/W96081152","https://openalex.org/W1605441808","https://openalex.org/W1690607747","https://openalex.org/W1902809146","https://openalex.org/W1963862628","https://openalex.org/W1970055835","https://openalex.org/W1970827552","https://openalex.org/W1970957621","https://openalex.org/W1976312746","https://openalex.org/W1978242636","https://openalex.org/W1988884185","https://openalex.org/W2004945910","https://openalex.org/W2020812606","https://openalex.org/W2025763720","https://openalex.org/W2030106788","https://openalex.org/W2033907622","https://openalex.org/W2048814860","https://openalex.org/W2050256969","https://openalex.org/W2060355037","https://openalex.org/W2065225159","https://openalex.org/W2065657795","https://openalex.org/W2071004407","https://openalex.org/W2073858449","https://openalex.org/W2077055994","https://openalex.org/W2086561953","https://openalex.org/W2087616533","https://openalex.org/W2089115165","https://openalex.org/W2100167293","https://openalex.org/W2100769069","https://openalex.org/W2101219438","https://openalex.org/W2106350024","https://openalex.org/W2119336718","https://openalex.org/W2120900330","https://openalex.org/W2121490615","https://openalex.org/W2130682154","https://openalex.org/W2139827133","https://openalex.org/W2140302584","https://openalex.org/W2141232134","https://openalex.org/W2151203827","https://openalex.org/W2152327613","https://openalex.org/W2154467419","https://openalex.org/W2162674813","https://openalex.org/W2166567740","https://openalex.org/W2166810745","https://openalex.org/W6603907867","https://openalex.org/W6636160900","https://openalex.org/W6644955668","https://openalex.org/W6674952022"],"related_works":["https://openalex.org/W2086525401","https://openalex.org/W2147993839","https://openalex.org/W2006735166","https://openalex.org/W2079327011","https://openalex.org/W2053325634","https://openalex.org/W2058984380","https://openalex.org/W1988125422","https://openalex.org/W2900182103","https://openalex.org/W4365136234","https://openalex.org/W3183769948"],"abstract_inverted_index":{"RNASurface":[0],"C":[1],"source":[2],"code":[3],"is":[4],"available":[5],"from":[6],"http://bioinf.fbb.msu.ru/RNASurface/downloads.html.":[7]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}