Literature DB >> 17400319

Systems biology--an engineering perspective.

A Kremling1, J Saez-Rodriguez.   

Abstract

The interdisciplinary field of systems biology has evolved rapidly over the last years. Different disciplines have aided the development of both its experimental and theoretical branches. One field, which has played a significant role is engineering science and, in particular chemical engineering. Here, we review and illustrate some of these contributions, ranging from modeling approaches to model analysis with a special focus on technique which have not yet been substantially exploited but can be potentially useful in the analysis of biochemical systems.

Mesh:

Year:  2007        PMID: 17400319     DOI: 10.1016/j.jbiotec.2007.02.009

Source DB:  PubMed          Journal:  J Biotechnol        ISSN: 0168-1656            Impact factor:   3.307


  16 in total

Review 1.  Classic and contemporary approaches to modeling biochemical reactions.

Authors:  William W Chen; Mario Niepel; Peter K Sorger
Journal:  Genes Dev       Date:  2010-09-01       Impact factor: 11.361

2.  Sloppy models, parameter uncertainty, and the role of experimental design.

Authors:  Joshua F Apgar; David K Witmer; Forest M White; Bruce Tidor
Journal:  Mol Biosyst       Date:  2010-06-17

3.  An iterative identification procedure for dynamic modeling of biochemical networks.

Authors:  Eva Balsa-Canto; Antonio A Alonso; Julio R Banga
Journal:  BMC Syst Biol       Date:  2010-02-17

4.  Mixed-integer nonlinear optimisation approach to coarse-graining biochemical networks.

Authors:  M R Maurya; S J Bornheimer; V Venkatasubramanian; S Subramaniam
Journal:  IET Syst Biol       Date:  2009-01       Impact factor: 1.615

Review 5.  The role of predictive modelling in rationally re-engineering biological systems.

Authors:  Tie Koide; Wyming Lee Pang; Nitin S Baliga
Journal:  Nat Rev Microbiol       Date:  2009-03-02       Impact factor: 60.633

6.  Creating and analyzing pathway and protein interaction compendia for modelling signal transduction networks.

Authors:  Daniel C Kirouac; Julio Saez-Rodriguez; Jennifer Swantek; John M Burke; Douglas A Lauffenburger; Peter K Sorger
Journal:  BMC Syst Biol       Date:  2012-05-01

7.  Training signaling pathway maps to biochemical data with constrained fuzzy logic: quantitative analysis of liver cell responses to inflammatory stimuli.

Authors:  Melody K Morris; Julio Saez-Rodriguez; David C Clarke; Peter K Sorger; Douglas A Lauffenburger
Journal:  PLoS Comput Biol       Date:  2011-03-03       Impact factor: 4.475

8.  Modular cell biology: retroactivity and insulation.

Authors:  Domitilla Del Vecchio; Alexander J Ninfa; Eduardo D Sontag
Journal:  Mol Syst Biol       Date:  2008-02-12       Impact factor: 11.429

9.  Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction.

Authors:  Julio Saez-Rodriguez; Leonidas G Alexopoulos; Jonathan Epperlein; Regina Samaga; Douglas A Lauffenburger; Steffen Klamt; Peter K Sorger
Journal:  Mol Syst Biol       Date:  2009-12-01       Impact factor: 11.429

10.  Differential dynamic properties of scleroderma fibroblasts in response to perturbation of environmental stimuli.

Authors:  Momiao Xiong; Frank C Arnett; Xinjian Guo; Hao Xiong; Xiaodong Zhou
Journal:  PLoS One       Date:  2008-02-27       Impact factor: 3.240

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