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1、MoleculeConstructionandDesignUsingVectorNTI10AdvanceYi-BuChen,Ph.D.BioinformaticsSpecialistNorrisMedicalLibraryUniversityofSouthernCalifornia323-442-3309yibuchen@belen.hsc.usc.eduWorkshopOutlineOverviewofmoleculetypesandcreationmethodsMajorstepsandtoolsformoleculeconstr
2、uctionanddesignConstructanewDNAmoleculeDesignanewDNAmoleculeOverviewofGatewayandTOPOcloningUsingsimulatedgelelectrophoresistoanalyzeclonedproductsUsefulonlineresourcesformoleculedesignpurposeFundamentalMoleculeTypesinVectorNTIBasicMolecules(DNA/RNA/Protein)?Notbuiltfrom
3、componentfragments?Sequencesandfeaturesareeitherenteredbyusersorimportedfromotherdatabases.ConstructedDNA/RNAMolecules?Builtfromoneormorefragments(parentmolecules,linkers,adapters,etc.)?AutomaticallyreceivetheFeaturemapandsequencesfromtheparentmolecules.ConstructedProte
4、inMolecules?TranslatedfromacodingsequenceofaDNAmolecule?DoesnotreceivetheFeaturemapfromitsparentDNAmoleculeMethodsofCreatingNewMoleculeinVectorNTIBasicMolecules(DNA/RNA/Protein)?Importingmoleculesorsequences?ManuallycreatingnewmoleculesConstructedDNA/RNAMolecules?Splici
5、ngexonsofanintron-exonjoinfeatureofanothermolecules?Constructingfromcompatiblecomponentfragmentsfromothermolecules?Designingfromcomponentsofauser-definedfragmentslist?Back-translatingfromproteinmoleculesfromcomponentsofauser-definedfragmentslistConstructedProteinMolecul
6、es?Splicingexonsofagene?TranslatedfromDNAmoleculesMoleculeConstructionvs.MoleculeDesignRecipientanddonorfragmentsaredefinedbyusers.Restrictionsitesaredefinedbyusers.Whenrequired,themethodsofterminusmodificationaredefinedbyusers.Recipientanddonorfragmentsareselectedbyuse
7、rs.RestrictionsitesareanalyzedandgeneratedbyVectorNTI.MethodsofterminusmodificationaredeterminedbyVectorNTI.MajorToolsforMolecularConstructionandDesignFragmentWizard?Constructfragments(definepositionsandtermini)?Designrecipient/donorfragments(definetermini)?Adddefinedfr
8、agmentstotheGoalMoleculeDefinitionListTheGoalMoleculeDefinitionList?Containsthelistoffragmentsdefinedandaddedb
