全基因组关联分析课件.ppt

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1、关联分析一些问题讨论1)候选基因策略2)全基因组策略AAAAAAAAAAGGGGGGGGLine1Line5Line6Line7Line8Line9Line2Line3Line4CandidategeneselectiongenesequencingPopulationdevelopmentPhenotypingAssociationanalysisMoresupportsCandidategeneselectionBiochemicalevidence(clearpathway)QTLevidenceOthermolecularevidences(egexpression,microa

2、ssay,etc.)ZEP1ZEP1PSY(Y1)ZDSPDSLCY-eVDE1VDE1Phytoeneζ-CaroteneLycopeneδ-Caroteneγ-Caroteneβ-Caroteneα-CaroteneViolaxanthinZeaxanthinAntheraxanthinLuteinIspsDXRDXSGGPSGGPP+GGPPDMADPHYD-bLCY-bCRTISOLCY-b(Ps1)LCY-bHYD-eABAβ-CryptoxanthinNextpotentialpathwayVEpathwayOilpathwayDiseaseABA……Genesequenci

3、ngandalignmentSequencingthewholegeneinacoresetlookforthepotentialfunctionalSNPs/InDelstodevelopmarkerstoscorethewholepanelSequencingpartialgeneinwholepanelLookfortheassociationsbasedonLDEstimatetheLDofthetargetgeneSequencingalignmentusingBiolign/Bioedit/ClusterSeeanotherpresentationEstimatetheLDo

4、fthetargetgeneSoftware---TasselAsdemobyXiaohongShowresultswithtwoway连锁不平衡AaBb读杨小红等作物学报,2007综述PopulationdevelopmentChr.LDChr11.5-2kChr22-5kChr35-10kChr45-10kChr51-1.5kChr6<1kChr75-10kChr85-10kChr91.5-2kChr102-5kAverage2-5KDiversityinbredsarethebestchoicefordevelopinganassociationmappingpanel群体结构Fa

5、lsepositivePowerPopulationstructureFamilialrelatednessadbceVariousassociationsamplesYuetal.,NatGenet38:203-208(2006)Section2AAAAAAGGGGGAGGGAAAGAAAObservedPFloweringtime(Highpopulationstructure)Earheight(Moderatepopulationstructure)Eardiameter(Lowpopulationstructure)0.50.50.500.10.20.30.400.10.20.

6、30.40.5ObservedPSimpleQKQ+KGC00.10.20.30.400.10.20.30.40.5SimpleQKQ+KGC00.10.20.30.400.10.20.30.40.5ObservedPCumulativePSimpleQKQ+KGCSimpleQKQ+KGCa.b.c.TypeIerrorrates(falsepositive)Astraightdiagonallineindicatesanappropriatecontroloffalsepositives.Q+KmodelhasbestTypeIerrorcontrol,mostimportantwh

7、entraitisrelatedtopopulationstructure(e.g.,floweringtime).StatisticalpowerFloweringtime(Highpopulationstructure)Earheight(Moderatepopulationstructure)Eardiameter(Lowpopulationstructure)00.20.40.60.8100.20.40.60.81Genet