Reaction Networks as Systems for Resource Allocation A Variational Principle for Their Non-Equilibrium Steady States 英文参考文献.docVIP

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Reaction Networks as Systems for Resource Allocation A Variational Principle for Their Non-Equilibrium Steady States 英文参考文献.doc

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Reaction Networks as Systems for Resource Allocation A Variational Principle for Their Non-Equilibrium Steady States 英文参考文献

ReactionNetworksasSystemsforResourceAllocation:A VariationalPrincipleforTheirNon-EquilibriumSteady States AndreaDeMartino1*,DanieleDeMartino2,RobertoMulet3,GuidoUguzzoni4 1IPCF-CNR, Dipartimento di Fisica, Sapienza Universita` di Roma, Roma, Italy, 2Dipartimento di Fisica, Sapienza Universita` di Roma, Roma, Italy, 3Group of Complex Systems,DepartmentofTheoreticalPhysics,PhysicsFaculty,UniversityofHavana,LaHabana,Cuba,4DipartimentodiFisica,Universita` diParmaandINFNSezionedi Parma,Parma,Italy Abstract Within a fully microscopic setting, we derive a variational principle for the non-equilibrium steady states of chemical reactionnetworks,validfortime-scalesoverwhichchemicalpotentialscanbetakentobeslowlyvarying:atstationaritythe systemminimizesaglobalfunctionofthereactionfluxeswiththeformofaHopfieldHamiltonianwithHebbiancouplings, thatisexplicitlyseentocorrespondtotherateofdecayofentropyproductionovertime.Guidedbythisanalogy,weshow that reaction networks can be formally re-cast as systems of interacting reactions that optimize the use of the available compoundsbycompetingforsubstrates,akintoagentscompetingforalimitedresourceinanoptimalallocationproblem. Asanillustration,weanalyzethescenariothatemergesintwosimplecases:thatoftoy(random)reactionnetworksand thatofametabolicnetworkmodelofthehumanredbloodcell. Citation:DeMartinoA,DeMartinoD,MuletR,UguzzoniG(2012)ReactionNetworksasSystemsforResourceAllocation:AVariationalPrincipleforTheirNon- EquilibriumSteadyStates.PLoSONE7(7):e39849.doi:10.1371/journal.pone.0039849 Editor:PetterHolme,Umea? University,Sweden ReceivedApril9,2012;AcceptedMay31,2012;PublishedJuly16,2012 Copyright:?2012DeMartinoetal.Thisisanopen-accessarticledistributedunderthetermsoftheCreativeCommonsAttributionLicense,whichpermits unrestricteduse,distribution,andreproductioninanymedium,providedtheoriginalauthorandsourcearecredited. Funding:ThisworkissupportedbytheSeedProjectDREAMoftheItalianInstituteofTechnology(IIT)andbythejointIIT/SapienzaNanomed