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《Chinese Science Bulletin》 2014-11
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Predicting recombination hot/cold spots in Saccharomyces cerevisiae from multiple information

ZHANG BingJie;LIU GuoQing;CAI Lu;School of Mathematics,Physics and Biological Engineering,Inner Mongolia University of Science and Technology;The Institute of Bioengineering and Technology,Inner Mongolia University of Science and Technology;  
Meiotic recombination is non-uniformly distributed across the genome, occurring at relatively high frequencies in some genomic regions(hotspots) and at relatively low frequencies in others(coldspots). Recombination depends not only on sequence features, but also on chromatin structure. Accurate identification of recombination hotspots and coldspots would assist our understanding of genetic recombination mechanisms and genome evolution. In this study, 2 kb recombination hot/cold spots were identified in Saccharomyces cerevisiae from experimental data. Using increment diversity with quadratic discriminant(IDQD) and support vector machine(SVM) algorithms, we predicted hot/cold spots from multiple genomic features associated with sequence, structure, thermodynamic stability of DNA and chromatin structure. The predictive model accurately discriminated recombination hotspots from coldspots. IDQD yielded higher overall performance than SVM in terms of sensitivity, specificity and accuracy.
【Fund】: 国家自然科学基金(61102162 61271448)资助
【CateGory Index】: Q93
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【Citations】
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8 Liu You-qiang~1,Li Bin~(1,2),Xi Ning~1,Chen Jia-jun~1 1 State Key Laboratory for Novel Software Technology at Nanjing University,Nanjing 210093 2Research Center of Language and Informatics,Nanjing Normal University,Nanjing 210097;A Bilingual-constrained Approach for Extracting Chinese Abbreviations[A];[C];2011
9 CHEN Long~1,WUZhiyong~1,YUAN Chun~1,MENG Helen~(1,2), CAI Lianhong (1.Tsinghua-CUHK Joint Research Center for Media Sciences, Technologies and Systems,Graduate School at Shenzhen, Tsinghua University,Shenzhen 518055; 2.Human-Computer Communications Laboratory,The Chinese University of Hong Kong,Hong Kong);A speaker and verbal information verification system for digital rights management[A];[C];2011
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