{"id":"https://openalex.org/W75765386","doi":null,"title":"Using SetPSO to determine RNA secondary structure","display_name":"Using SetPSO to determine RNA secondary structure","publication_year":2009,"publication_date":"2009-04-09","ids":{"openalex":"https://openalex.org/W75765386","mag":"75765386"},"language":"en","primary_location":{"id":"pmh:oai:repository.up.ac.za:2263/29202","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/2263/29202","pdf_url":"http://upetd.up.ac.za/thesis/available/etd-02162009-112429/","source":{"id":"https://openalex.org/S4306401870","display_name":"UpSpace Institutional Repository (University of Pretoria)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I69552723","host_organization_name":"University of Pretoria","host_organization_lineage":["https://openalex.org/I69552723"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dissertation"},"volume":null,"type":"dissertation","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://upetd.up.ac.za/thesis/available/etd-02162009-112429/","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5024754991","display_name":"Charles Marais Neethling","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Charles Marais Neethling","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5024754991"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9613999724388123,"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":0.9613999724388123,"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/T10100","display_name":"Metaheuristic Optimization Algorithms Research","score":0.026900000870227814,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.001500000013038516,"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-secondary-structure-prediction","display_name":"RNA secondary structure prediction","score":0.9980000257492065},{"id":"https://openalex.org/keywords/particle-swarm-optimization","display_name":"particle swarm optimization","score":0.859000027179718},{"id":"https://openalex.org/keywords/thermodynamic-modeling","display_name":"thermodynamic modeling","score":0.5830000042915344},{"id":"https://openalex.org/keywords/energy-minimization","display_name":"energy minimization","score":0.9879999756813049},{"id":"https://openalex.org/keywords/combinatorial-optimization","display_name":"combinatorial optimization","score":0.9610000252723694},{"id":"https://openalex.org/keywords/stochastic-optimization","display_name":"stochastic optimization","score":0.7870000004768372}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.41311365365982056},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3299521207809448}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:repository.up.ac.za:2263/29202","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/2263/29202","pdf_url":"http://upetd.up.ac.za/thesis/available/etd-02162009-112429/","source":{"id":"https://openalex.org/S4306401870","display_name":"UpSpace Institutional Repository (University of Pretoria)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I69552723","host_organization_name":"University of Pretoria","host_organization_lineage":["https://openalex.org/I69552723"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dissertation"},{"id":"mag:75765386","doi":null,"is_oa":false,"landing_page_url":"https://repository.up.ac.za/handle/2263/29202","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"pmh:oai:repository.up.ac.za:2263/29202","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/2263/29202","pdf_url":"http://upetd.up.ac.za/thesis/available/etd-02162009-112429/","source":{"id":"https://openalex.org/S4306401870","display_name":"UpSpace Institutional Repository (University of Pretoria)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I69552723","host_organization_name":"University of Pretoria","host_organization_lineage":["https://openalex.org/I69552723"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dissertation"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W75765386.pdf","grobid_xml":"https://content.openalex.org/works/W75765386.grobid-xml"},"referenced_works_count":84,"referenced_works":["https://openalex.org/W1226599","https://openalex.org/W149500278","https://openalex.org/W165213868","https://openalex.org/W202510507","https://openalex.org/W1495143124","https://openalex.org/W1495225503","https://openalex.org/W1497256448","https://openalex.org/W1519185585","https://openalex.org/W1526455201","https://openalex.org/W1559047570","https://openalex.org/W1574643310","https://openalex.org/W1576426930","https://openalex.org/W1576818901","https://openalex.org/W1585306636","https://openalex.org/W1747542960","https://openalex.org/W1848294875","https://openalex.org/W1978187259","https://openalex.org/W1980410097","https://openalex.org/W1981777358","https://openalex.org/W1982119742","https://openalex.org/W1984675364","https://openalex.org/W1984867418","https://openalex.org/W1989296116","https://openalex.org/W1989561030","https://openalex.org/W1995403172","https://openalex.org/W1998358440","https://openalex.org/W2000191287","https://openalex.org/W2004945910","https://openalex.org/W2005291652","https://openalex.org/W2006854294","https://openalex.org/W2009265617","https://openalex.org/W2009818318","https://openalex.org/W2010352098","https://openalex.org/W2014946489","https://openalex.org/W2015002404","https://openalex.org/W2017302704","https://openalex.org/W2017313617","https://openalex.org/W2025763720","https://openalex.org/W2028170344","https://openalex.org/W2034694694","https://openalex.org/W2035879262","https://openalex.org/W2044595289","https://openalex.org/W2047046780","https://openalex.org/W2048792281","https://openalex.org/W2048796447","https://openalex.org/W2051713039","https://openalex.org/W2054931730","https://openalex.org/W2064580019","https://openalex.org/W2064667228","https://openalex.org/W2075702353","https://openalex.org/W2081749411","https://openalex.org/W2081833503","https://openalex.org/W2087862352","https://openalex.org/W2089897725","https://openalex.org/W2091735434","https://openalex.org/W2094031081","https://openalex.org/W2098818780","https://openalex.org/W2102934142","https://openalex.org/W2102954583","https://openalex.org/W2103250001","https://openalex.org/W2106882534","https://openalex.org/W2111393363","https://openalex.org/W2113368761","https://openalex.org/W2121492055","https://openalex.org/W2124162379","https://openalex.org/W2125213524","https://openalex.org/W2129283395","https://openalex.org/W2132142633","https://openalex.org/W2135232426","https://openalex.org/W2136361016","https://openalex.org/W2139138332","https://openalex.org/W2141157874","https://openalex.org/W2141521804","https://openalex.org/W2141601045","https://openalex.org/W2142056356","https://openalex.org/W2145113795","https://openalex.org/W2145149786","https://openalex.org/W2158746132","https://openalex.org/W2164943294","https://openalex.org/W2170472690","https://openalex.org/W2415556764","https://openalex.org/W2463089998","https://openalex.org/W2543580944","https://openalex.org/W2741340870"],"related_works":["https://openalex.org/W2158746132","https://openalex.org/W1976996978","https://openalex.org/W2195746424","https://openalex.org/W2124209439","https://openalex.org/W955875630","https://openalex.org/W2371361846","https://openalex.org/W2393883190","https://openalex.org/W2123764300","https://openalex.org/W2991072818","https://openalex.org/W2038270581"],"abstract_inverted_index":{"RNA":[0,23,26,58,98,194],"secondary":[1,59,195],"structure":[2,48,60,95,159,196],"prediction":[3,106,160],"is":[4,27,49,107,117],"an":[5,97,101,110,202],"important":[6,40],"field":[7],"in":[8,32,42,51],"Bioinformatics.":[9],"A":[10],"number":[11,38],"of":[12,22,39,46,54,70,96,143,146,152,157,166,193,207,223],"different":[13,226],"approaches":[14],"have":[15],"been":[16],"developed":[17,125],"to":[18,92,135,164,190,216,219],"simplify":[19],"the":[20,52,68,94,191,205,208,221],"determination":[21],"molecule":[24],"structures.":[25],"a":[28,37,72,80,118,144,150,167,182],"nucleic":[29],"acid":[30],"found":[31,175],"living":[33,43],"organisms":[34],"which":[35,141,186],"fulfils":[36],"roles":[41],"cells.":[44],"Knowledge":[45],"its":[47,55],"crucial":[50],"understanding":[53],"function.":[56],"Determining":[57],"computationally,":[61],"rather":[62,148],"than":[63,149],"by":[64,126],"physical":[65],"means,":[66],"has":[67],"advantage":[69],"being":[71],"quicker":[73],"and":[74,128,228],"cheaper":[75],"method.":[76],"This":[77,130,198],"dissertation":[78],"introduces":[79],"new":[81,209],"Set-based":[82],"Particle":[83,114],"Swarm":[84],"Optimisation":[85],"algorithm,":[86],"known":[87],"as":[88,109,181],"SetPSO":[89,177,210,224],"for":[90],"short,":[91],"optimise":[93],"molecule,":[99],"using":[100],"advanced":[102],"thermodynamic":[103],"model.":[104],"Structure":[105],"modelled":[108],"energy":[111],"minimisation":[112],"problem.":[113],"swarm":[115],"optimisation":[116,123,184,211,230],"simple":[119,131],"but":[120],"effective":[121],"stochastic":[122],"technique":[124,132,185],"Kennedy":[127],"Eberhart.":[129],"was":[133,162,174],"adapted":[134],"work":[136],"with":[137],"variable":[138],"length":[139],"particles":[140],"consist":[142],"set":[145],"elements":[147],"vector":[151],"real":[153],"numbers.":[154],"The":[155],"effectiveness":[156],"this":[158],"approach":[161],"compared":[163],"that":[165,176],"dynamic":[168],"programming":[169],"algorithm":[170],"called":[171],"mfold.":[172],"It":[173],"can":[178,187],"be":[179,188,217],"used":[180],"combinatorial":[183,227],"applied":[189],"problem":[192],"prediction.":[197],"research":[199],"also":[200],"included":[201],"investigation":[203],"into":[204],"behaviour":[206],"algorithm.":[212],"Further":[213],"study":[214],"needs":[215],"conducted":[218],"evaluate":[220],"performance":[222],"on":[225],"set-based":[229],"problems.":[231]},"counts_by_year":[{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}