2024
Systems modeling of oncogenic G-protein and GPCR signaling reveals unexpected differences in downstream pathway activation
Trogdon M, Abbott K, Arang N, Lande K, Kaur N, Tong M, Bakhoum M, Gutkind J, Stites E. Systems modeling of oncogenic G-protein and GPCR signaling reveals unexpected differences in downstream pathway activation. Npj Systems Biology And Applications 2024, 10: 75. PMID: 39013872, PMCID: PMC11252164, DOI: 10.1038/s41540-024-00400-1.Peer-Reviewed Original ResearchConceptsSignaling networksMathematical models of biochemical reaction networksModels of biochemical reaction networksG-proteinCell signaling networksDisease-causing mutationsComputational systems biologyBiochemical reaction networksDownstream pathway activationSignaling phenotypeSystems biologyBioinformatics analysisGPCR signalingMutationsCo-occurring mutationsOncogenic mutationsPathway activationDiscovery toolPathwayReaction networkSignalCYSLTR2 mutationsDiscoveryPhenotypeMutually-exclusive
2013
Innovations of the Rule-Based Modeling Approach
Chylek L, Stites E, Posner R, Hlavacek W. Innovations of the Rule-Based Modeling Approach. 2013, 273-300. DOI: 10.1007/978-94-007-6803-1_9.Peer-Reviewed Original ResearchRule-based modeling approachRule-based modelProtein-protein interactionsCell engineering applicationsCell signaling systemsCell signaling mechanismsDynamics of molecular interactionsPhosphoproteomic dataRule-based approachSignaling mechanismsRule-basedSignaling systemCellular levelNetwork generationMolecular interactionsTraditional approachesNetworkModeling approachCellsReaction networkRulesModeling chemical kineticsSpecies