蛋白质GeneontologyKEGG分析软件David使用方法介绍课件.ppt
- 文档编号:1214078
- 上传时间:2022-10-19
- 格式:PPT
- 页数:29
- 大小:1.25MB
蛋白质GeneontologyKEGG分析软件David使用方法介绍课件.ppt
《蛋白质GeneontologyKEGG分析软件David使用方法介绍课件.ppt》由会员分享,可在线阅读,更多相关《蛋白质GeneontologyKEGG分析软件David使用方法介绍课件.ppt(29页珍藏版)》请在冰豆网上搜索。
DAVID,DatabaseforAnnotation,VisualizationandIntegratedDiscovery,DAVIDprovidesacomprehensivesetoffunctionalannotationtoolsforinvestigatorstounderstandbiologicalmeaningbehindlargelistofgenes,Identifyenrichedbiologicalthemes,particularlyGOtermsDiscoverenrichedfunctional-relatedgenegroupsClusterredundantannotationtermsVisualizegenesonBioCarta&KEGGpathwaymapsDisplayrelatedmany-genes-to-many-termson2-Dview.SearchforotherfunctionallyrelatedgenesnotinthelistListinteractingproteinsExploregenenamesinbatchLinkgene-diseaseassociationsHighlightproteinfunctionaldomainsandmotifsRedirecttorelatedliteraturesConvertgeneidentifiersfromonetypetoanother.,GeneListManager,DAVIDAnalyticModules,Anygivengeneisassociatingwithasetofannotationterms.Ifgenessharesimilarsetofthoseterms,theyaremostlikelyinvolvedinsimilarbiologicalmechanisms.Thealgorithmadoptskappastatisticstoquantitativelymeasurethedegreeoftheagreementhowgenessharethesimilarannotationterms.Kapparesultrangesfrom0to1.ThehigherthevalueofKappa,thestrongertheagreement.Kappamorethan0.7typicallyindicatesthatagreementoftwogenesarestrong.Kappavaluesgreaterthan0.9areconsideredexcellent.,ParameterPanel,GeneClustersIdentifiedbyDAVID,UsersgeneIDs&Names,1,2,Viewandselectannotationcategoriesofyourinterests,3,3,3,Percentage,e.g.44/163,Genesfromthelistinvolvedinthisannotationcategory,SinglechartreportonlyforthisAnnotationcategories,TablereportforallSelectedannotationcategories,Linearorredundantchartreportofannotationtermsforallselectedannotationcategoriesabove,Clusteredornon-redundantchartreportofannotationtermsforallselectedannotationcategoriesabove,DAVIDGeneIDConversionTool(DGCT),Ifasignificantportion(20%)ofinputgeneIDsfailtobemappedtoaninternalDAVIDID,aspeciallydesignedmodule,theDAVIDGeneIDConversionTool,willstartuptohelpmapsuchIDs.,DAVIDGeneNameBatchViewer,ThegenenamebatchviewerisabletoquicklyattachmeaningtoalistofgeneIDsbyrapidlytranslatingthemintotheircorrespondinggenenames.beforeproceedingtoanalysiswithothermorecomprehensiveanalytictools,investigatorscanquicklyglanceatthegenenamestofurthergaininsightabouttheirstudyandtoanswerquestions.,DAVIDGeneFunctionalclassification,TheFunctionalClassificationToolgeneratesagene-to-genesimilaritymatrixbasedsharedfunctionalannotationusingover75,000termsfrom14functionalannotationsources.Thenovelclusteringalgorithmsclassifieshighlyrelatedgenesintofunctionallyrelatedgroups.,SimilarityTermOverlap(anyvalue=0;default=4):
theminimumnumberofannotationtermsoverlappedbetweentwogenesinordertobequalifiedforkappacalculation.SimilarityThreshold(anyvaluebetween0to1;Default=0.35):
theminimumkappavaluetobeconsideredbiologicalsignificant.InitialGroupMembers(anyvalue=2;default=4):
theminimumgenenumberinaseedinggroup,whichaffectstheminimumsizeofeachfunctionalgroupinthefinal.FinalGroupMembers(anyvalue=2;default=4):
theminimumgenenumberinonefinalgroupafter“cleanup”procedure.Multi-linkageThreshold(anyvaluebetween0%to100%;default=50%):
Itcontrolshowseedinggroupsmergeeachother,i.e.twogroupssharingthesamegenemembersoverthepercentagewillbecomeonegroup.Thehigherpercentage,ingeneral,givessharperseparationi.e.itgeneratesmorefinalfunctionalgroupswithmoretightlyassociatedgenesineachgroup.Inaddition,changingtheparameterdoesnotcontributeextragenesintounclusteredgroup.,
- 配套讲稿:
如PPT文件的首页显示word图标,表示该PPT已包含配套word讲稿。双击word图标可打开word文档。
- 特殊限制:
部分文档作品中含有的国旗、国徽等图片,仅作为作品整体效果示例展示,禁止商用。设计者仅对作品中独创性部分享有著作权。
- 关 键 词:
- 蛋白质 GeneontologyKEGG 分析 软件 David 使用方法 介绍 课件