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1、JAVAFORBIOINFORMATICSANDBIOMEDICALAPPLICATIONSJAVAFORBIOINFORMATICSANDBIOMEDICALAPPLICATIONSbyHarshawardhanBalBoozAllenHamilton,Inc.,Rockville,MDandJohnnyHujolVertexPharmaceuticals,Inc.,Cambridge,MA^SprringeirLibraryofCongressControlNumber:2006930294ISBN-10:0-387-37235-0
2、e-ISBN-10:0-387-37237-7ISBN-13:978-0-387-37237-8Printedonacid-freepaper.©2007SpringerScience-HBusinessMedia,LLCAllrightsreserved.Thisworkmaynotbetranslatedorcopiedinwholeorinpartwithoutthewrittenpermissionofthepublisher(SpringerScience-t-BusinessMedia,LLC,233SpringStreet
3、,NewYork,NY10013,USA),exceptforbriefexcerptsinconnectionwithreviewsorscholarlyanalysis.Useinconnectionwithanyformofinformationstorageandretrieval,electronicadaptation,computersoftware,orbysimilarordissimilarmethodologynowknownorhereafterdevelopedisforbidden.Theuseinthisp
4、ublicationoftradenames,trademarks,servicemarksandsimilarterms,eveniftheyarenotidentifiedassuch,isnottobetakenasanexpressionofopinionastowhetherornottheyaresubjecttoproprietaryrights.PrintedintheUnitedStatesofAmerica.987654321springer.comContentsForewordIXIntroductionIXBa
5、ckgroundandhistoryIXInterfacesandstandardsXJavaasaplatformXThefutureXIPrefaceXIIIChapter11IntroductiontoBioinformaticsandJava1TheOriginsofBioinformatics1CurrentStateofBiomedicalResearch3ThecancerBiomedicalInformaticsGridprogram6caBIG™OrganizationandArchitecture7TheModel-
6、View-ControllerFramework9WebServicesandService-OrientedArchitecture10CaGrid11Let'slookateachofthetoolsinturnandunderstandhowtheysub•serveoraddressasmallcomponentofthebiggerresearchproblem.14CaArray14CaWorkbench16RProteomics17cPath17CaTissueCore,caTissueClinicalAnnotation
7、EngineandcaTIES...18CaTissueCore18Summary20QuestionsandExercises21AdditionalResources21SelectedReading23ChapterII25VIIntroductiontoBasicLocalAlignmentSearchTool25ThePurposeofBLAST25PerformingaBLASTAnalysis27DevelopingtheSwingBlastApplication32DesigningtheSwingBlastJavaAp
8、plication35JavaEventModel36AddingEventstoApplications37DesigningtheSwingBlastGUI39CodingtheSwingBlastGU