Revisiting Date and Party Hubs Novel Approaches to Role Assignment in Protein Interaction Networks 英文参考文献.docVIP

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Revisiting Date and Party Hubs Novel Approaches to Role Assignment in Protein Interaction Networks 英文参考文献.doc

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Revisiting Date and Party Hubs Novel Approaches to Role Assignment in Protein Interaction Networks 英文参考文献

RevisitingDateandPartyHubs:NovelApproachesto RoleAssignmentinProteinInteractionNetworks SumeetAgarwal1,2,CharlotteM.Deane3,4,MasonA.Porter5,6,NickS.Jones2,4,6 * 1Systems Biology Doctoral Training Centre, University of Oxford, Oxford, United Kingdom, 2Department of Physics, University of Oxford, Oxford, United Kingdom, 3DepartmentofStatistics,UniversityofOxford,Oxford,UnitedKingdom,4OxfordCentreforIntegrativeSystemsBiology,UniversityofOxford,Oxford,UnitedKingdom, 5OxfordCentreforIndustrialandAppliedMathematics,MathematicalInstitute,UniversityofOxford,Oxford,UnitedKingdom,6CABDyNComplexityCentre,Universityof Oxford,Oxford,UnitedKingdom Abstract Theideaof‘‘date’’and‘‘party’’hubshasbeeninfluentialinthestudyofprotein–proteininteractionnetworks.Datehubs displaylowco-expressionwiththeirpartners,whilstpartyhubshavehighco-expression.Itwasproposedthatpartyhubs arelocalcoordinatorswhereasdatehubsareglobalconnectors.Here,weshowthatthereportedimportanceofdatehubs tonetworkconnectivitycaninfactbeattributedtoatinysubsetofthem.Crucially,thesefew,extremelycentral,hubsdo notdisplayparticularlylowexpressioncorrelation,underminingtheideaofalinkbetweenthisquantityandhubfunction. The date/party distinction was originally motivated by an approximately bimodal distribution of hub co-expression; we showthatthisfeatureisnotalwaysrobusttomethodologicalchanges.Additionally,topologicalpropertiesofhubsdonot in general correlate with co-expression. However, we find significant correlations between interaction centrality and the functionalsimilarityoftheinteractingproteins.Wesuggestthatthinkingintermsofadate/partydichotomyforhubsin protein interaction networks is not meaningful, and it might be more useful to conceive of roles for protein-protein interactionsratherthanforindividualproteins. Citation: Agarwal S, Deane CM, Porter MA, Jones NS (2010) Revisiting Date and Party Hubs: Novel Approaches to Role Assignment in Protein Interaction Networks.PLoSComputBiol6(6):e1000817.doi:10.1371/journal.pc