title: Networks and circuits in cell regulation.
abstract: Large-scale "omics" data are often represented as networks of interacting components, but such representation is inherently static and, as such, cannot provide a realistic picture of the temporal dynamics of complex cellular functions. These difficulties suggest moving to a modeling strategy that explicitly takes into account both the wiring of the components and the task they perform. From an engineering perspective, this problem resembles that of "circuit analysis". In this paper, we focus on a limited but relevant biological circuit, the G1 to S transition in yeast cell cycle, and investigate both the network representation and the corresponding circuit described by a mathematical model, by means of a wide range of numerical simulation analysis. Reliable predictions of system-level properties are achieved and the parameters that mostly affect these properties are found out.
authors.affiliation: Istituto di Analisi dei Sistemi ed Informatica Antonio Ruberti, Consiglio Nazionale delle Ricerche, Viale Manzoni 30, 00185 Roma, Italy. pasquale.palumbo@iasi.cnr.it
authors.forename: Pasquale
authors.initials: P
authors.lastname: Palumbo
authors.forename: Gabriella
authors.initials: G
authors.lastname: Mavelli
authors.forename: Lorenzo
authors.initials: L
authors.lastname: Farina
authors.forename: Lilia
authors.initials: L
authors.lastname: Alberghina
mesh_terms: D002453:Cell Cycle; D003198:Computer Simulation; D016193:G1 Phase; D053858:Metabolic Networks and Pathways; D008954:Models, Biological; D016196:S Phase; D012441:Saccharomyces cerevisiae / Q000166:cytology / Q000378:metabolism / Q000502:physiology*