geo gene expression omnibus：geo基因表达数据库

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1、GeneExpressionOmnibus(GEO)http://www.ncbi.nlm.nih.gov/geo/MicroarraysingeneexpressionAtypicalgeneexpressionanalysisexperiment:Differentialsystems–e.g.cancervs.normal,drugvs.nodrugChoose/preparethemicroarrayExtracttotalmRNA(transcriptome)Reversetranscription/dyelabelingCombineequalamountsHyb

2、ridizeScanANALYSEANDINTERPRETTHERESULTS–thisisthetrickypart…MicroarraysingeneexpressionSPOTSHybridizationSCANApublicrepositoryforthearchivinganddistributionofgeneexpressiondatasubmittedbythescientificcommunity.Curated,onlineresourceforgeneexpressiondatabrowsing,query,analysisandretrieval.Co

3、nvenientfordepositionofgeneexpressiondata,asrequiredbyfundingagenciesandjournals.GeneExpressionOmnibus(GEO):GeneExpressionandMolecularAbundanceDataRepositoryGEOArchitecturePlatform(GPL)=thetechnologyusedandthefeaturesdetected.Sample(GSM)=preparationanddescriptionofthesample.Series(GSE)defi

4、nesasetofsamplesandhowtheyarerelated.DataSets(GDS)sampledatacollectionsassembledbyGEOstaff.GEOhasfourkindsofdatarecordsGPLPlatformdescriptionsGSMRaw/processedspotintensitiesfromasingleslide/chipGSEGroupingofslide/chipdata“asingleexperiment”GDSGroupingofexperimentsCuratedbyNCBISubmittedbyExp

5、erimentalistsSubmittedbyManufacturerGEOArchitectureGEOHomePageSimpleinterfaceto:showstatusfinddocumentationquerydatabrowsedataPlatformAccessionPagePlatformdetails:DescriptionTypeOrganismManufacturerRelatedsamplesandseriesNOTETHETOPBAR(SCOPE)SampleAccessionPageSampledetails:DescriptionTypeOr

6、ganismSourceRelatedplatformsandseriesSampleFileDataTableDatatablefielddescriptionsTruncateddatatablefromQuickviewTotaldatarowsandfilesizeSeriesAccessionPageBiologicalsamplesummaryDesignsummaryPublicationinformationRelatedplatformsandsamplesDATASETorGENEPROFILEsearchGEOdatacanbequeriedas:Dat

7、asets:experiment-centricviewusingEntrezGEODataSetsGeneprofiles:gene-centricviewusingEntrezGEOProfilesSelectingeithertakesyoutoasimilarEntrezintroductionpageQueryingGEODataSetsStartaGEODataSetssearchwiththeQuery>DataSetstextboxThisbringsupanEntrezGEODataS