{"id":"https://openalex.org/W1992743217","doi":"https://doi.org/10.1109/iccabs.2012.6182642","title":"Finding consensus stable local optimal structures for aligned RNA sequences","display_name":"Finding consensus stable local optimal structures for aligned RNA sequences","publication_year":2012,"publication_date":"2012-02-01","ids":{"openalex":"https://openalex.org/W1992743217","doi":"https://doi.org/10.1109/iccabs.2012.6182642","mag":"1992743217"},"language":"en","primary_location":{"id":"doi:10.1109/iccabs.2012.6182642","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2012.6182642","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE 2nd International Conference on Computational Advances in Bio and medical Sciences (ICCABS)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://stars.library.ucf.edu/scopus2010/5297","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5043632819","display_name":"Yuan Li","orcid":"https://orcid.org/0000-0001-9942-0803"},"institutions":[{"id":"https://openalex.org/I106165777","display_name":"University of Central Florida","ror":"https://ror.org/036nfer12","country_code":"US","type":"education","lineage":["https://openalex.org/I106165777"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yuan Li","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL, USA","Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA, 32816-2362"],"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL, USA","institution_ids":["https://openalex.org/I106165777"]},{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA, 32816-2362","institution_ids":["https://openalex.org/I106165777"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100768909","display_name":"Shaojie Zhang","orcid":"https://orcid.org/0000-0002-4051-5549"},"institutions":[{"id":"https://openalex.org/I106165777","display_name":"University of Central Florida","ror":"https://ror.org/036nfer12","country_code":"US","type":"education","lineage":["https://openalex.org/I106165777"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shaojie Zhang","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL, USA","Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA, 32816-2362"],"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL, USA","institution_ids":["https://openalex.org/I106165777"]},{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA, 32816-2362","institution_ids":["https://openalex.org/I106165777"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5043632819"],"corresponding_institution_ids":["https://openalex.org/I106165777"],"apc_list":null,"apc_paid":null,"fwci":0.2689,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.57039262,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"111","issue":null,"first_page":"1","last_page":"6"},"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":0.9987000226974487,"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":0.992900013923645,"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/non-coding-rna","display_name":"Non-coding RNA","score":0.7015385627746582},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.6164491176605225},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6059780120849609},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.5685369968414307},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3821491003036499},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3611609935760498},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3479437828063965},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.3437957763671875},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.32373476028442383},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2938283681869507},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11660328507423401},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07349354028701782}],"concepts":[{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.7015385627746582},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.6164491176605225},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6059780120849609},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.5685369968414307},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3821491003036499},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3611609935760498},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3479437828063965},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.3437957763671875},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.32373476028442383},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2938283681869507},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11660328507423401},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07349354028701782},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/iccabs.2012.6182642","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2012.6182642","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE 2nd International Conference on Computational Advances in Bio and medical Sciences (ICCABS)","raw_type":"proceedings-article"},{"id":"pmh:oai:stars.library.ucf.edu:scopus2010-6296","is_oa":true,"landing_page_url":"https://stars.library.ucf.edu/scopus2010/5297","pdf_url":null,"source":{"id":"https://openalex.org/S4210172555","display_name":"Journal of International Crisis and Risk Communication Research","issn_l":"2576-0017","issn":["2576-0017","2576-0025"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Scopus Export 2010-2014","raw_type":"text"}],"best_oa_location":{"id":"pmh:oai:stars.library.ucf.edu:scopus2010-6296","is_oa":true,"landing_page_url":"https://stars.library.ucf.edu/scopus2010/5297","pdf_url":null,"source":{"id":"https://openalex.org/S4210172555","display_name":"Journal of International Crisis and Risk Communication Research","issn_l":"2576-0017","issn":["2576-0017","2576-0025"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Scopus Export 2010-2014","raw_type":"text"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":35,"referenced_works":["https://openalex.org/W1587893425","https://openalex.org/W1964020370","https://openalex.org/W1976312746","https://openalex.org/W1978187259","https://openalex.org/W1996251966","https://openalex.org/W2009736453","https://openalex.org/W2017313617","https://openalex.org/W2018216725","https://openalex.org/W2030492311","https://openalex.org/W2030621944","https://openalex.org/W2031512086","https://openalex.org/W2037871728","https://openalex.org/W2042504957","https://openalex.org/W2049446075","https://openalex.org/W2080251448","https://openalex.org/W2088278063","https://openalex.org/W2088892367","https://openalex.org/W2095145214","https://openalex.org/W2101535367","https://openalex.org/W2110041134","https://openalex.org/W2117431427","https://openalex.org/W2137015675","https://openalex.org/W2137640371","https://openalex.org/W2140651796","https://openalex.org/W2141411594","https://openalex.org/W2154845231","https://openalex.org/W2158267024","https://openalex.org/W2158381555","https://openalex.org/W2164061693","https://openalex.org/W2413886249","https://openalex.org/W3122583070","https://openalex.org/W4230640326","https://openalex.org/W4245789532","https://openalex.org/W4300746236","https://openalex.org/W6635068786"],"related_works":["https://openalex.org/W4238897586","https://openalex.org/W435179959","https://openalex.org/W2619091065","https://openalex.org/W2059640416","https://openalex.org/W4399363378","https://openalex.org/W2058984380","https://openalex.org/W1988125422","https://openalex.org/W2900182103","https://openalex.org/W3183769948","https://openalex.org/W3184762873"],"abstract_inverted_index":{"Many":[0],"non-coding":[1],"RNAs":[2],"(ncRNAs),":[3],"such":[4],"as":[5],"riboswitches,":[6],"can":[7,27,128,140],"fold":[8],"into":[9],"alternate":[10,24,46,143],"native":[11,25,47,144],"structures":[12,26,48,134,145],"and":[13,139,150],"perform":[14],"different":[15],"biological":[16],"functions.":[17],"The":[18],"computational":[19,41],"prediction":[20],"of":[21,77,88,117,120,132],"an":[22],"ncRNA's":[23,33,65],"be":[28],"conducted":[29],"by":[30,53],"analyzing":[31],"the":[32,64,75,78,93,113,130],"energy":[34,66,115],"landscape.":[35,67],"Previously,":[36],"we":[37,80],"have":[38],"developed":[39],"a":[40,50,86,97,118],"approach,":[42,99],"RNASLOpt,":[43,138],"to":[44,73,92,101],"predict":[45,141],"for":[49,153],"single":[51],"ncRNA":[52,90],"generating":[54],"all":[55,103],"possible":[56,104],"stable":[57],"local":[58],"optimal":[59],"(SLOpt)":[60],"stack":[61,107],"configurations":[62,108],"on":[63,112],"In":[68],"this":[69],"paper,":[70],"in":[71],"order":[72],"improve":[74],"accuracy":[76],"prediction,":[79],"incorporate":[81],"structural":[82],"conservation":[83],"information":[84],"among":[85],"family":[87,119],"related":[89,121],"sequences":[91],"prediction.":[94],"We":[95],"propose":[96],"comparative":[98],"RNAConSLOpt,":[100],"produce":[102],"consensus":[105,114],"SLOpt":[106],"that":[109,126],"are":[110,155],"conserved":[111],"landscape":[116],"ncRNAs.":[122],"Benchmarking":[123],"tests":[124,152],"show":[125],"RNAConSLOpt":[127],"reduce":[129],"number":[131],"candidate":[133],"considered":[135],"compared":[136],"with":[137],"ncRNAs'":[142],"accurately.":[146],"Availability:":[147],"Source":[148],"code":[149],"benchmark":[151],"RNACon-SLOpt":[154],"available":[156],"at":[157],"http://genome.ucf.edu/RNAConSLOpt.":[158]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2015,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
