The main framework analysis for the most part of biological dynamics remains the theory of ordinary differential equations (ODEs). However, ODEs present some intrinsic limitations in the evaluation of the kinetic reaction rates. In contrast to ODEs, Metabolic P systems (MP systems), based on Pǎun's P systems, were introduced for modelling metabolic systems by means of suitable multiset rewriting grammars. In this work three applications of MP systems are presented, for discovering the internal regulation logic of three phenomena relevant in systems biology: i) the Goldbeter's mitotic oscillator; ii) the glucose/insulin dynamics in the Intravenous Glucose Tolerance Test; iii) the HER-2 oncogene-regulated transcriptome in human SUM-225 cells. Despite the differences between the considered phenomena, in all the cases a model was found that exhibits good approximation of the observed time series and highlights results which are new or that have been only theorized before.

APPLICATION OF THE MP THEORY TO SYSTEMS BIOLOGY / Manca, V.; Marchetti, L.. - (2012), pp. 303-308. (Intervento presentato al convegno International Conference on Bio-inspired Systems and Signal Processing BIOSIGNALS 2012; tenutosi a Vilamoura, Algarve; Portugal nel 1-4 February 2012) [10.5220/0003852003030308].

APPLICATION OF THE MP THEORY TO SYSTEMS BIOLOGY

Marchetti L.
2012-01-01

Abstract

The main framework analysis for the most part of biological dynamics remains the theory of ordinary differential equations (ODEs). However, ODEs present some intrinsic limitations in the evaluation of the kinetic reaction rates. In contrast to ODEs, Metabolic P systems (MP systems), based on Pǎun's P systems, were introduced for modelling metabolic systems by means of suitable multiset rewriting grammars. In this work three applications of MP systems are presented, for discovering the internal regulation logic of three phenomena relevant in systems biology: i) the Goldbeter's mitotic oscillator; ii) the glucose/insulin dynamics in the Intravenous Glucose Tolerance Test; iii) the HER-2 oncogene-regulated transcriptome in human SUM-225 cells. Despite the differences between the considered phenomena, in all the cases a model was found that exhibits good approximation of the observed time series and highlights results which are new or that have been only theorized before.
2012
Proceedings of the International Conference on Bio-inspired Systems and Signal Processing
Vilamoura, Algarve; Portugal
SciTePress
978-989-8425-89-8
Manca, V.; Marchetti, L.
APPLICATION OF THE MP THEORY TO SYSTEMS BIOLOGY / Manca, V.; Marchetti, L.. - (2012), pp. 303-308. (Intervento presentato al convegno International Conference on Bio-inspired Systems and Signal Processing BIOSIGNALS 2012; tenutosi a Vilamoura, Algarve; Portugal nel 1-4 February 2012) [10.5220/0003852003030308].
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11572/326070
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