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Comparison of feature selection techniques for viral DNA replication origin prediction 病毒DNA复制起源预测的特征选择技术比较
2009 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology Pub Date : 2009-03-30 DOI: 10.1109/CIBCB.2009.4925718
R. Cruz-Cano, M. Leung
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引用次数: 1
rnaDesign: Local search for RNA secondary structure design rnaDesign:局部搜索RNA二级结构设计
2009 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology Pub Date : 2009-03-01 DOI: 10.1109/CIBCB.2009.4925700
D. C. Dai, Herbert H. Tsang, K. Wiese
{"title":"rnaDesign: Local search for RNA secondary structure design","authors":"D. C. Dai, Herbert H. Tsang, K. Wiese","doi":"10.1109/CIBCB.2009.4925700","DOIUrl":"https://doi.org/10.1109/CIBCB.2009.4925700","url":null,"abstract":"The RNA secondary structure design (SSD) problem is a recently emerging research topic motivated by applications such as customized drug design and the self-assembly of RNA nano-objects. This paper presents a novel local search algorithm, rnaDesign for SSD solving. An evaluation of the algorithm performance in terms of sequence affinity and structure specificity is made through comparison with another algorithm, RNAinverse. Experiments were performed on RNA secondary structures including three biologically existing data sets and one random structure set. Empirical results show that rnaDesign outperforms RNAinverse in terms of structure designability; sequences designed by rnaDesign also exhibit better thermodynamic stability with relatively lower folding energy. Furthermore, we demonstrate through parameter tuning experiments that using a combination of heuristic search strategies leads to better design performance; there also exists a strong correlation between the heuristic values in use and solution quality.","PeriodicalId":162052,"journal":{"name":"2009 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology","volume":"2 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2009-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131485268","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 6
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