水稻基因结构分析与预测建模  

Analysis and predictive model of rice gene structures

作　　者：周艳红[1] 朱建丽[1] 马闯[1] 程遥[1] 

机构地区：[1]华中科技大学生物信息与分子成像湖北省重点实验室,湖北武汉430074

出　　处：《华中科技大学学报（自然科学版）》2008年第4期62-64,共3页Journal of Huazhong University of Science and Technology(Natural Science Edition)

基　　金：国家自然科学基金资助项目(90203011;90608020);教育部新世纪优秀人才支持计划资助项目(NCET-060651);国家科技基础条件平台资助项目(2005DKA64001)

摘　　要：将水稻基因结构预测问题划分为基因级、元件级和特征级等多个层次上的一系列较简单子问题,分析了各特征与序列C+G含量之间的依赖关系,通过采用从简单到复杂逐级优化的策略建立了不同序列C+G含量的水稻基因结构模型,设计了基因结构寻优的动态规划算法,开发了水稻基因结构预测软件Rice-GenePRE.采用测试数据集OsSNG550对该软件进行测试的结果显示:RiceGenePRE在核苷酸、外显子和基因水平上的预测效果均优于水稻基因结构预测系统FGENESH.The complicated problem of predicting gene structures in rice DNA sequences is decomposed into a series of sub-problems at several levels with decreasing complexity, including the gene level, the element level and the feature level. The dependences of features on the C＋G content of rice DNA sequences are analyzed. Further, multilevel models corresponding to different C＋G contents are created by a multilevel optimization process, a dynamic programming algorithm is designed to search for optimal gene structures, and a new program RiceGenePRE for the prediction of rice gene structures is developed. Testing results on the dataset OsSNG550 demonstrate that the prediction accuracies of RiceGenePRE at nucleotide level, exon level and gene level are all higher than those of the well-known program FGENESH.

关 键 词：基因结构预测 水稻基因组 C+G含量 多级优化 

分 类 号：TP181[自动化与计算机技术—控制理论与控制工程] Q78[自动化与计算机技术—控制科学与工程]