{"id":"https://openalex.org/W1986751695","doi":"https://doi.org/10.1109/cibcb.2013.6595401","title":"RIPGA: RNA-RNA interaction prediction using genetic algorithm","display_name":"RIPGA: RNA-RNA interaction prediction using genetic algorithm","publication_year":2013,"publication_date":"2013-04-01","ids":{"openalex":"https://openalex.org/W1986751695","doi":"https://doi.org/10.1109/cibcb.2013.6595401","mag":"1986751695"},"language":"en","primary_location":{"id":"doi:10.1109/cibcb.2013.6595401","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2013.6595401","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2013 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5012089518","display_name":"Kwan-Yau Cheung","orcid":"https://orcid.org/0000-0002-8455-7900"},"institutions":[{"id":"https://openalex.org/I177725633","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48","country_code":"HK","type":"education","lineage":["https://openalex.org/I177725633"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Kwan-Yau Cheung","raw_affiliation_strings":["Department of Computer Science and Engineering, Chinese University of Hong Kong, Sha tin, Hong Kong, China","Dept. of Comput. Sci. & Eng., Chinese Univ. of Hong Kong, Shatin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Chinese University of Hong Kong, Sha tin, Hong Kong, China","institution_ids":["https://openalex.org/I177725633"]},{"raw_affiliation_string":"Dept. of Comput. Sci. & Eng., Chinese Univ. of Hong Kong, Shatin, China","institution_ids":["https://openalex.org/I177725633"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056247446","display_name":"Kwok Kit Tong","orcid":"https://orcid.org/0000-0001-8594-9300"},"institutions":[{"id":"https://openalex.org/I177725633","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48","country_code":"HK","type":"education","lineage":["https://openalex.org/I177725633"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Kwok-Kit Tong","raw_affiliation_strings":["Department of Computer Science and Engineering, Chinese University of Hong Kong, Sha tin, Hong Kong, China","Dept. of Comput. Sci. & Eng., Chinese Univ. of Hong Kong, Shatin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Chinese University of Hong Kong, Sha tin, Hong Kong, China","institution_ids":["https://openalex.org/I177725633"]},{"raw_affiliation_string":"Dept. of Comput. Sci. & Eng., Chinese Univ. of Hong Kong, Shatin, China","institution_ids":["https://openalex.org/I177725633"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109898714","display_name":"Kin-Hong Lee","orcid":null},"institutions":[{"id":"https://openalex.org/I177725633","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48","country_code":"HK","type":"education","lineage":["https://openalex.org/I177725633"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Kin-Hong Lee","raw_affiliation_strings":["Department of Computer Science and Engineering, Chinese University of Hong Kong, Sha tin, Hong Kong, China","Dept. of Comput. Sci. & Eng., Chinese Univ. of Hong Kong, Shatin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Chinese University of Hong Kong, Sha tin, Hong Kong, China","institution_ids":["https://openalex.org/I177725633"]},{"raw_affiliation_string":"Dept. of Comput. Sci. & Eng., Chinese Univ. of Hong Kong, Shatin, China","institution_ids":["https://openalex.org/I177725633"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5113582655","display_name":"Kwong\u2010Sak Leung","orcid":null},"institutions":[{"id":"https://openalex.org/I177725633","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48","country_code":"HK","type":"education","lineage":["https://openalex.org/I177725633"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Kwong-Sak Leung","raw_affiliation_strings":["Department of Computer Science and Engineering, Chinese University of Hong Kong, Sha tin, Hong Kong, China","Dept. of Comput. Sci. & Eng., Chinese Univ. of Hong Kong, Shatin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Chinese University of Hong Kong, Sha tin, Hong Kong, China","institution_ids":["https://openalex.org/I177725633"]},{"raw_affiliation_string":"Dept. of Comput. Sci. & Eng., Chinese Univ. of Hong Kong, Shatin, China","institution_ids":["https://openalex.org/I177725633"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I177725633"],"apc_list":null,"apc_paid":null,"fwci":1.0253,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.77182685,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"15","issue":null,"first_page":"148","last_page":"153"},"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/T10604","display_name":"RNA Research and Splicing","score":0.9994000196456909,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.8604840040206909},{"id":"https://openalex.org/keywords/non-coding-rna","display_name":"Non-coding RNA","score":0.5639863610267639},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5294102430343628},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4306415915489197},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4074554443359375},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2842411994934082},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2786950469017029},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20121490955352783}],"concepts":[{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.8604840040206909},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.5639863610267639},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5294102430343628},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4306415915489197},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4074554443359375},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2842411994934082},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2786950469017029},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20121490955352783}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cibcb.2013.6595401","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2013.6595401","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2013 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/7","display_name":"Affordable and clean energy","score":0.8899999856948853}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":30,"referenced_works":["https://openalex.org/W1542426682","https://openalex.org/W1543796220","https://openalex.org/W1977937947","https://openalex.org/W1983815263","https://openalex.org/W2004945910","https://openalex.org/W2009818318","https://openalex.org/W2022916085","https://openalex.org/W2033907622","https://openalex.org/W2043653977","https://openalex.org/W2051944221","https://openalex.org/W2060123499","https://openalex.org/W2088938573","https://openalex.org/W2094253263","https://openalex.org/W2098995200","https://openalex.org/W2099306789","https://openalex.org/W2103250001","https://openalex.org/W2119340328","https://openalex.org/W2129706781","https://openalex.org/W2132081807","https://openalex.org/W2150882562","https://openalex.org/W2160515562","https://openalex.org/W2160945322","https://openalex.org/W2161043701","https://openalex.org/W2164700062","https://openalex.org/W2166268906","https://openalex.org/W2166810745","https://openalex.org/W2612812586","https://openalex.org/W3125620659","https://openalex.org/W6675060545","https://openalex.org/W6684319383"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W2051487156","https://openalex.org/W2058984380","https://openalex.org/W1988125422","https://openalex.org/W2900182103","https://openalex.org/W3183769948","https://openalex.org/W3184762873","https://openalex.org/W2010385783","https://openalex.org/W2600828970"],"abstract_inverted_index":{"Non-coding":[0],"RNAs":[1,12],"are":[2,13,23,32,62,121,181],"RNA":[3,101],"molecules":[4],"that":[5,71,90,223],"do":[6],"not":[7,85],"translate":[8],"into":[9,148],"proteins.":[10],"These":[11],"functional":[14],"important":[15],"in":[16,231],"many":[17],"biological":[18,21],"processes.":[19],"Their":[20],"functions":[22],"highly":[24],"related":[25],"to":[26,40,44,94,161,183,195],"their":[27],"interaction":[28,49,59,112,118,129,138,146,165,175,193],"partners.":[29],"RNA-RNA":[30,58,111,117,137,164,174],"interactions":[31],"one":[33],"of":[34,51,75,135,199,214],"the":[35,48,72,96,110,127,136,149,163,173,197,200,206,215,219,224],"possibilities.":[36],"It":[37,88],"is":[38,77,84,177],"desired":[39],"use":[41,169,190],"computational":[42],"methods":[43],"study":[45,109,126],"and":[46,131,179,204,218,234,248],"predict":[47],"partners":[50],"non-coding":[52],"RNAs.":[53],"Most":[54],"recent":[55],"programs":[56,61],"for":[57,99],"prediction":[60,166,176],"based":[63,158],"on":[64],"Turner":[65,150],"Energy":[66,151],"Model.":[67,152],"Some":[68],"papers":[69],"show":[70],"free":[73],"energy":[74,97,202,226],"RNA-structures":[76],"lower":[78],"than":[79],"random":[80],"sequences":[81],"but":[82],"it":[83],"statistically":[86],"significant.":[87],"shows":[89,222],"we":[91,107,141,180],"may":[92],"need":[93],"modify":[95],"model":[98,203,217,221,227],"different":[100],"structures":[102],"applications.":[103],"In":[104],"this":[105],"paper,":[106],"first":[108],"pattern":[113],"using":[114],"experimental":[115],"validated":[116],"data,":[119],"which":[120],"extracted":[122],"from":[123],"sRNATarBase.":[124],"We":[125,153,168,189],"sRNA-mRNA":[128,192],"data":[130],"extract":[132],"some":[133],"features":[134,144],"patterns.":[139],"Then":[140],"combine":[142],"these":[143],"about":[145],"sites":[147],"develop":[154],"a":[155],"genetic":[156,170],"algorithm":[157,171],"program":[159],"RIPGA":[160,240,244],"solve":[162],"problem.":[167],"because":[172],"NP-hard":[178],"interested":[182],"find":[184],"out":[185],"good":[186],"suboptimal":[187],"solutions.":[188],"an":[191],"dataset":[194],"evaluate":[196],"performance":[198,230],"modified":[201,220,225],"compare":[205],"results":[207],"with":[208,241],"two":[209],"state-of-the-art":[210,242],"programs.":[211],"The":[212],"comparison":[213],"original":[216],"has":[228],"better":[229,246],"both":[232],"sensitivity":[233,247],"positive":[235,250],"predictive":[236,251],"value":[237],"(PPV).":[238],"Comparing":[239],"programs,":[243],"have":[245],"comparable":[249],"value.":[252]},"counts_by_year":[{"year":2016,"cited_by_count":1}],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}
