title: Simulation of a bounded symport/antiport P system with Brane calculi.
abstract: Membrane systems (also called P systems) and Brane calculi have been recently introduced as formal models inspired by the structure and the functioning of living cells, but having in mind different goals. The aim of Membrane systems was the formal investigation of the computational nature and power of various features of the cell, while Brane calculi aims to define a model capable of a faithful and intuitive representation of various biological processes. The common background of the two formalisms and the recent growing of interests in applying P systems in Systems Biology have raised the natural question of bridging this two research areas. The present paper goes in this direction, as it presents a direct simulation of a variant of P systems by means of Brane calculi. In particular, we consider a Brane calculus based on three operations called Mate/Bud/Drip, and we show how to use such system to simulate Simple symport/antiport P systems, a variant of P systems purely based on communication of objects. As an example, a simplified sodium-potassium pump modeled in Simple SA is encoded in Mate/Bud/Drip Brane calculus.
authors: Università degli Studi di Milano-Bicocca, Dipartimento di Informatica, Sistemistica e Comunicazione, Via Bicocca degli Arcimboldi 8, 20126 Milano, Italy. antonio.vitale@studenti.unimib.it
authors: Antonio
authors: A
authors: Vitale
authors: Giancarlo
authors: G
authors: Mauri
authors: Claudio
authors: C
authors: Zandron
mesh_terms: D000465:Algorithms; D000818:Animals; D017920:Antiporters / Q000502:physiology*; D003198:Computer Simulation; D006801:Humans; D015640:Ion Channel Gating / Q000502:physiology*; D008954:Models, Biological; D012984:Software; D027981:Symporters / Q000502:physiology*; D049490:Systems Biology / Q000379:methods*
chemical_list: D017920:Antiporters; D027981:Symporters