课程介绍

 

　　ThiscoursewillintroducethestudenttocontemporarySystemsBiologyfocusedonmammaliancells,theirconstituentsandtheirfunctions.Biologyismovingfrommoleculartomodular.Asourknowledgeofourgenomeandgeneexpressiondeepensandwedeveloplistsofmolecules(proteins,lipids,ions)involvedincellularprocesses,weneedtounderstandhowthesemoleculesinteractwitheachothertoformmodulesthatactasdiscretefunctionalsystems.Thesesystemsunderliecoresubcellularprocessessuchassignaltransduction,transcription,motilityandelectricalexcitability.Inturntheseprocessescometogethertoexhibitcellularbehaviorssuchassecretion,proliferationandactionpotentials.Whatarethepropertiesofsuchsubcellularandcellularsystems?Whatarethemechanismsbywhichemergentbehaviorsofsystemsarise?Whattypesofexperimentsinformsystems-levelthinking?Whydoweneedcomputationandsimulationstounderstandthesesystems?Thecoursewilldevelopmultiplelinesofreasoningtoanswerthequestionslistedabove.Twomajorreasoningthreadsare:thedesign,executionandinterpretationofmultivariableexperimentsthatproducelargedatasets;quantitativereasoning,modelsandsimulations.Exampleswillbediscussedtodemonstrate“how”cell-levelfunctionsariseand“why”mechanisticknowledgeallowsustopredictcellularbehaviorsleadingtodiseasestatesanddrugresponses.

 

　　课程目录

 

　　1SystemsLevelReasoning|MoleculestoPathways

 

　　1.1OverviewofSystemsLevelReasoning&MoleculestoPathways

 

　　1.2.1SystemsLevelReasoningI

 

　　1.2.2SystemsLevelReasoningII

 

　　1.3.1MoleculestoPathways-cAMPandGProteinPathwaysI

 

　　1.3.2MoleculestoPathways-cAMPandGProteinPathwaysII

 

　　2PathwaystoNetworksPhysicalForcesandElectricalActivityinCellBiology

 

　　2.1.1PathwaystoNetworksMAPkinasePathwaysNetworkI

 

　　2.1.2PathwaystoNetworksMAPkinasePathwaysNetworkII

 

　　2.2.1MechanicalForcesinCellBiology

 

　　2.3.1ElectricalActivityinCellBiology

 

　　3MathematicalRepresentationsofCellBiologicalSystemsSimulationsofCellBiologicalSystems

 

　　3.1.1MathematicalRepresentationsofCellBiologicalSystemsI

 

　　3.2.1MathematicalRepresentationsofCellBiologicalSystemsII

 

　　3.3.1SimulationsofCellBiologicalSystemsI

 

　　3.3.2SimulationsofCellBiologicalSystemsII

 

　　4ExperimentalTechnologiesNetworkBuildingandAnalysis

 

　　4.1ExperimentalTechnologies

 

　　4.2AnalyzingLargeDataSets

 

　　4.3NetworkBuildingAnalysisandDataOrganization

 

　　4.4BuildingNetworks

 

　　5AnalysisofNetworksTopologytoFunction

 

　　5.1.1AnalysisofNetworksI

 

　　5.1.2AnalysisofNetworksII

 

　　5.2.1FromTopologytoFunctionDirectedSignSpecifiedGraphsI

 

　　5.3.1FromTopologytoFunctionDirectedSignSpecifiedGraphsII

 

　　6StrengthsandLimitationsofDifferentTypesofModelsIdentifyingEmergentProperties

 

　　6.1StrengthsandLimitationsofDifferentTypesofModelsI

 

　　6.2StrengthsandLimitationsofDifferentTypesofModelsII

 

　　6.3IdentifyingEmergentPropertiesBistabilityI

 

　　6.4IdentifyingEmergentPropertiesBistabilityII

 

　　7EmergentPropertiesUltrasensitivityandRobustnessCaseStudies

 

　　7.1Ultrasensitivity

 

　　7.2RobustnessandScaffolds

 

　　7.3CaseStudiesI

 

　　7.4CaseStudiesII

 

　　8CaseStudiesSystemsBiomedicineSystemsPharmacologyandTherapeuticsPerspective

 

　　8.1CaseStudiesIII

 

　　8.2CaseStudiesIV

 

　　8.3SystemsBiomedicine

 

　　8.4SystemsPharmacologyandTherapeutics

 

　　8.5Perspective