Literature DB >> 11471241

Quantitative modeling of biochemical networks.

R Hofestädt1, S Thelen.   

Abstract

Today different database systems for molecular structures (genes and proteins) and metabolic pathways are available. All these systems are characterized by the static data representation. For progress in biotechnology the dynamic representation of this data is important. The metabolism can be characterized as a complex biochemical network. Different models for the quantitative simulation of biochemical networks are discussed, but no useful formalization is available. This paper shows that the theory of Petrinets is useful for the quantitative modeling of biochemical networks.

Mesh:

Year:  1998        PMID: 11471241

Source DB:  PubMed          Journal:  In Silico Biol        ISSN: 1386-6338


  7 in total

1.  Modelling and simulation of signal transductions in an apoptosis pathway by using timed Petri nets.

Authors:  Chen Li; Qi-Wei Ge; Mitsuru Nakata; Hiroshi Matsuno; Satoru Miyano
Journal:  J Biosci       Date:  2007-01       Impact factor: 1.826

2.  Reduced-order modelling of biochemical networks: application to the GTPase-cycle signalling module.

Authors:  M R Maurya; S J Bornheimer; V Venkatasubramanian; S Subramaniam
Journal:  Syst Biol (Stevenage)       Date:  2005-12

3.  Algorithms for effective querying of compound graph-based pathway databases.

Authors:  Ugur Dogrusoz; Ahmet Cetintas; Emek Demir; Ozgun Babur
Journal:  BMC Bioinformatics       Date:  2009-11-16       Impact factor: 3.169

4.  Inference of cancer-specific gene regulatory networks using soft computing rules.

Authors:  Xiaosheng Wang; Osamu Gotoh
Journal:  Gene Regul Syst Bio       Date:  2010-03-24

5.  Systematic reconstruction of TRANSPATH data into cell system markup language.

Authors:  Masao Nagasaki; Ayumu Saito; Chen Li; Euna Jeong; Satoru Miyano
Journal:  BMC Syst Biol       Date:  2008-06-23

6.  Multi-level model for the investigation of oncoantigen-driven vaccination effect.

Authors:  Francesca Cordero; Marco Beccuti; Chiara Fornari; Stefania Lanzardo; Laura Conti; Federica Cavallo; Gianfranco Balbo; Raffaele Calogero
Journal:  BMC Bioinformatics       Date:  2013-04-17       Impact factor: 3.169

7.  Modeling integrated cellular machinery using hybrid Petri-Boolean networks.

Authors:  Natalie Berestovsky; Wanding Zhou; Deepak Nagrath; Luay Nakhleh
Journal:  PLoS Comput Biol       Date:  2013-11-07       Impact factor: 4.475

  7 in total

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