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1、华中科技大学博士学位论文真核生物基因组结构自动注释系统研究姓名：陆枫申请学位级别：博士专业：计算机应用技术指导教师：卢正鼎;周艳红20061106华中科技大学博士学位论文中心的导航策略。建立了在高性能计算环境下整合上述注释软件、数据库以及web访问接口等的基因组结构自动注释系统。采用基于网格计算和集群计算的两级调度体系结构完成了基因组结构自动注释系统在高性能计算环境下的部署。关键词：真核生物，DNA序列，基因结构预测，基因组结构注释，基因组数据库，基因组浏览器，生物信息网格，集群计算II华中科技大学博士学位论文AbstractSincethesequencesofsp
2、ecies’genomesrepresentthefirstcloseddatasetinbiology,thegenestructureannotationforgenomes,whichincludethepredictionofgenecomposing,genestructureandgeneregulatorsingenomeDNAsequences,becomesthecoreissueinbioinformatics.Anautomaticgenomeannotationsystembasedonthebioinformaticsanalysismeth
3、odbecomesarapidandeffectivewaytoannotatedifferentfeaturesingenomeswhichincludegenesandgenestuctures.Atthesametime,theneedforscalablewaysandtechnologiesofstoringandmanaginggenome-scaleannotationdatawillenableuserstoaccessandretrievedatathroughtheglobalweb,besidesthenecessarilyinformation
4、securityanddataprotection.Moreover,onaccountofthehugedemandingforcomputingpower,theannotationsystembasedonasetofanalysissoftwaresmustbebasedonhighperformancecomputingenvironment.Tosolvetheaboveproblems,thefollowingseveralaspectsoftheworkhavebeenengaged.Thegene-buildingpipeline,whichenab
5、lesfastautomatedannotationofeukaryoticgenomes,basedonevidencederivedfromknownprotein,cDNA/mRNA,EST,andwholegenomesequences,integratesvariableanalysesandalgorithmswhichincludeproteinalignments,ESTgenebuildandabinitiopredictions.Hence,anautomaticgeneannotationsystemhasbeensetup.Studiesonp
6、redictionofeukaryoticgenestructureareconductedfromextractingfeaturesofeukaryoticgenestructures,ESTdata-mining,modelsandalgorithmsdesigning,softwaredevelopment,andsoon.Consequently,asoftwareforabinitiopredictionofeukaryoticgenestructureandaprogramforidentifytrueESTalignmentsandexonregion
7、sofgenesaredeveloped.Genomedatabaseintegratinggenomesequencesdataandannotationshavebeenestablished.Centralwiththeannotatedfeaturesingenomes,thedatabaseconceptualmodelcanbecreatedtoeffectivestoreandmanagetheresultsofthegenomeannotation.Basedonthecharacteristicof“oncebuild,moreti
