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Joint clustering of protein interaction networks through Markov random walk

Joint clustering of protein interaction networks through Markov random walk

ID：40719804

大小：2.51 MB

页数：13页

时间：2019-08-06

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1、WangandQianBMCSystemsBiology2014,8(Suppl1):S9http://www.biomedcentral.com/1752-0509/8/S1/S9PROCEEDINGSOpenAccessJointclusteringofproteininteractionnetworksthroughMarkovrandomwalk11,2,3*†YijieWang,XiaoningQianFromTheTwelfthAsiaPacificBioinformaticsConference(APBC2014)Shanghai,China.17-19Janua

2、ry2014AbstractBiologicalnetworksobtainedbyhigh-throughputprofilingorhumancurationaretypicallynoisy.Forfunctionalmoduleidentification,singlenetworkclusteringalgorithmsmaynotyieldaccurateandrobustresults.Inordertoborrowinformationacrossmultiplesourcestoalleviatesuchproblemsduetodataquality,wep

3、roposeanewjointnetworkclusteringalgorithmASModelinthispaper.Weconstructanintegratednetworktocombinenetworktopologicalinformationbasedonprotein-proteininteraction(PPI)datasetsandhomologicalinformationintroducedbyconstituentsimilaritybetweenproteinsacrossnetworks.Anovelrandomwalkstrategyonthei

4、ntegratednetworkisdevelopedforjointnetworkclusteringandanoptimizationproblemisformulatedbysearchingforlowconductancesetsdefinedonthederivedtransitionmatrixoftherandomwalk,whichfusesbothtopologyandhomologyinformation.Theoptimizationproblemofjointclusteringissolvedbyaderivedspectralclusteringa

5、lgorithm.Networkclusteringusingseveralstate-of-the-artalgorithmshasbeenimplementedtobothPPInetworkswithinthesamespecies(twoyeastPPInetworksandtwohumanPPInetworks)andthosefromdifferentspecies(ayeastPPInetworkandahumanPPInetwork).ExperimentalresultsdemonstratethatASModeloutperformstheexistings

6、inglenetworkclusteringalgorithmsaswellasanotherrecentjointclusteringalgorithmintermsofcomplexpredictionandGeneOntology(GO)enrichmentanalysis.Introductiontoinvestigatetheselarge-scaledataistoanalyzetheminOverthepastdecade,onegoalofsystemsbiologyistotheframeworkofnetworkanalysis[2].Inthispaper

7、,weunderstandhowdifferentmoleculesworktogethertofocusontheanalysisofPPInetworks.Weareinterestedinmaintaincellularfunctionalities[1,2].Itisnowacommonnetworkclusteringtodividethegivennetworkintosmallbeliefthatmanycomplexdiseasesincludingcancerareduep

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