{"id":"https://openalex.org/W3083215873","doi":"https://doi.org/10.1109/cec48606.2020.9185702","title":"Examination of Annealing Schedules for RNA Design","display_name":"Examination of Annealing Schedules for RNA Design","publication_year":2020,"publication_date":"2020-07-01","ids":{"openalex":"https://openalex.org/W3083215873","doi":"https://doi.org/10.1109/cec48606.2020.9185702","mag":"3083215873"},"language":"en","primary_location":{"id":"doi:10.1109/cec48606.2020.9185702","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cec48606.2020.9185702","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 IEEE Congress on Evolutionary Computation (CEC)","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/A5031452464","display_name":"Ryan McBride","orcid":"https://orcid.org/0000-0001-8616-1910"},"institutions":[{"id":"https://openalex.org/I125749732","display_name":"Western University","ror":"https://ror.org/02grkyz14","country_code":"CA","type":"education","lineage":["https://openalex.org/I125749732"]},{"id":"https://openalex.org/I24370400","display_name":"Trinity Western University","ror":"https://ror.org/01j2kd606","country_code":"CA","type":"education","lineage":["https://openalex.org/I24370400"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Ryan McBride","raw_affiliation_strings":["Applied Research Lab, Trinity Western University, Langley, British Columbia, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Applied Research Lab, Trinity Western University, Langley, British Columbia, Canada","institution_ids":["https://openalex.org/I125749732","https://openalex.org/I24370400"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049705327","display_name":"Herbert H. Tsang","orcid":"https://orcid.org/0000-0001-8928-7375"},"institutions":[{"id":"https://openalex.org/I125749732","display_name":"Western University","ror":"https://ror.org/02grkyz14","country_code":"CA","type":"education","lineage":["https://openalex.org/I125749732"]},{"id":"https://openalex.org/I24370400","display_name":"Trinity Western University","ror":"https://ror.org/01j2kd606","country_code":"CA","type":"education","lineage":["https://openalex.org/I24370400"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Herbert H. Tsang","raw_affiliation_strings":["Applied Research Lab, Trinity Western University, Langley, British Columbia, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Applied Research Lab, Trinity Western University, Langley, British Columbia, Canada","institution_ids":["https://openalex.org/I125749732","https://openalex.org/I24370400"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":1.4692,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.81788701,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":95},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9882000088691711,"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":0.9786999821662903,"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/simulated-annealing","display_name":"Simulated annealing","score":0.7489278316497803},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.721085786819458},{"id":"https://openalex.org/keywords/schedule","display_name":"Schedule","score":0.6756287813186646},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5826030373573303},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.43911707401275635},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.35957714915275574},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.21466633677482605},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.14324361085891724},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1357179880142212}],"concepts":[{"id":"https://openalex.org/C126980161","wikidata":"https://www.wikidata.org/wiki/Q863783","display_name":"Simulated annealing","level":2,"score":0.7489278316497803},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.721085786819458},{"id":"https://openalex.org/C68387754","wikidata":"https://www.wikidata.org/wiki/Q7271585","display_name":"Schedule","level":2,"score":0.6756287813186646},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5826030373573303},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.43911707401275635},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.35957714915275574},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.21466633677482605},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.14324361085891724},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1357179880142212},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cec48606.2020.9185702","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cec48606.2020.9185702","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 IEEE Congress on Evolutionary Computation (CEC)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":24,"referenced_works":["https://openalex.org/W148948641","https://openalex.org/W343311925","https://openalex.org/W1593394816","https://openalex.org/W1945034450","https://openalex.org/W1986342384","https://openalex.org/W1989454102","https://openalex.org/W2020865862","https://openalex.org/W2020999234","https://openalex.org/W2021730381","https://openalex.org/W2089019240","https://openalex.org/W2090887988","https://openalex.org/W2097506325","https://openalex.org/W2103250001","https://openalex.org/W2154003902","https://openalex.org/W2158381555","https://openalex.org/W2163557777","https://openalex.org/W2558663629","https://openalex.org/W2588568083","https://openalex.org/W2588767476","https://openalex.org/W2763099228","https://openalex.org/W2785639765","https://openalex.org/W2914444921","https://openalex.org/W6635489133","https://openalex.org/W6744999102"],"related_works":["https://openalex.org/W2051487156","https://openalex.org/W2073681303","https://openalex.org/W2053286651","https://openalex.org/W2181743346","https://openalex.org/W2067147118","https://openalex.org/W2187401768","https://openalex.org/W2181413294","https://openalex.org/W2392013129","https://openalex.org/W2989452537","https://openalex.org/W4327850430"],"abstract_inverted_index":{"Computational":[0],"Intelligence":[1],"is":[2],"frequently":[3],"applied":[4],"to":[5,10,38,68,76],"solve":[6,157],"RNA":[7,12,22,43,56,70,105,115,138,158,186],"design":[8,116,139],"problems,":[9],"construct":[11],"sequences":[13,44],"that":[14,26,45,152],"fold":[15,46],"into":[16,47],"biochemically":[17],"useful":[18],"structures":[19],"and":[20,63,100,174,182],"alignments.":[21],"Design's":[23],"NP-Hardness":[24],"means":[25],"heuristic":[27],"solutions,":[28],"such":[29,81],"as":[30,72,74],"Evolutionary":[31],"algorithms'":[32],"Simulated":[33,53],"Annealing,":[34],"are":[35],"commonly":[36],"used":[37],"more":[39],"effectively":[40],"search":[41],"for":[42,168,185],"the":[48,60,77,125,145],"target":[49,78],"structure.":[50,79],"Examples":[51],"of":[52,127,147],"Annealing":[54],"in":[55,179],"Design":[57,106,159],"include":[58,143],"SIMARD,":[59],"ERD":[61],"approach,":[62],"RNAPredict,":[64],"all":[65],"which":[66],"aim":[67],"return":[69],"Sequences":[71],"close":[73],"possible":[75],"However,":[80],"methods":[82],"only":[83,110],"use":[84],"a":[85],"single":[86],"simulated":[87,120,130],"annealing":[88,121,131],"cooling":[89,107,154],"schedule":[90,108,149,171],"even":[91],"though":[92],"literature":[93],"covers":[94],"many":[95],"schedules":[96,132,155,184],"with":[97,133],"varied":[98],"convergence":[99],"performances":[101],"guarantees.":[102],"Since":[103],"existing":[104],"surveys":[109],"cover":[111],"at":[112],"most":[113],"four":[114,128],"problems":[117,160],"over":[118],"two":[119],"variants,":[122],"we":[123],"investigate":[124],"performance":[126],"major":[129],"ten":[134],"variants":[135],"on":[136],"twenty-nine":[137],"sequences.":[140],"Relevant":[141],"findings":[142],"a)":[144],"insensitivity":[146],"geometric":[148,170],"parameters,":[150],"b)":[151],"logarithmic":[153],"can":[156],"not":[161],"solved":[162],"by":[163],"other":[164],"schedules,":[165],"c)":[166],"suggestions":[167],"adjusting":[169],"stopping":[172],"conditions,":[173],"d)":[175],"identifying":[176],"common":[177],"issues":[178],"popular":[180],"adaptive":[181],"non-adaptive":[183],"Design.":[187]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}