Literature DB >> 16971329

Systems interface biology.

Francis J Doyle1, Jörg Stelling.   

Abstract

The field of systems biology has attracted the attention of biologists, engineers, mathematicians, physicists, chemists and others in an endeavour to create systems-level understanding of complex biological networks. In particular, systems engineering methods are finding unique opportunities in characterizing the rich behaviour exhibited by biological systems. In the same manner, these new classes of biological problems are motivating novel developments in theoretical systems approaches. Hence, the interface between systems and biology is of mutual benefit to both disciplines.

Mesh:

Year:  2006        PMID: 16971329      PMCID: PMC1664650          DOI: 10.1098/rsif.2006.0143

Source DB:  PubMed          Journal:  J R Soc Interface        ISSN: 1742-5662            Impact factor:   4.118


  111 in total

Review 1.  Genomics, gene expression and DNA arrays.

Authors:  D J Lockhart; E A Winzeler
Journal:  Nature       Date:  2000-06-15       Impact factor: 49.962

2.  Regulation of gene expression in flux balance models of metabolism.

Authors:  M W Covert; C H Schilling; B Palsson
Journal:  J Theor Biol       Date:  2001-11-07       Impact factor: 2.691

Review 3.  Time zones: a comparative genetics of circadian clocks.

Authors:  M W Young; S A Kay
Journal:  Nat Rev Genet       Date:  2001-09       Impact factor: 53.242

4.  Highly optimized tolerance: a mechanism for power laws in designed systems.

Authors:  J M Carlson; J Doyle
Journal:  Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics       Date:  1999-08

5.  Metabolic network structure determines key aspects of functionality and regulation.

Authors:  Jörg Stelling; Steffen Klamt; Katja Bettenbrock; Stefan Schuster; Ernst Dieter Gilles
Journal:  Nature       Date:  2002-11-14       Impact factor: 49.962

6.  On the complete determination of biological systems.

Authors:  Douglas W Selinger; Matthew A Wright; George M Church
Journal:  Trends Biotechnol       Date:  2003-06       Impact factor: 19.536

7.  Integrating high-throughput and computational data elucidates bacterial networks.

Authors:  Markus W Covert; Eric M Knight; Jennifer L Reed; Markus J Herrgard; Bernhard O Palsson
Journal:  Nature       Date:  2004-05-06       Impact factor: 49.962

8.  Reconstructing pathways in large genetic networks from genetic perturbations.

Authors:  Andreas Wagner
Journal:  J Comput Biol       Date:  2004       Impact factor: 1.479

9.  The relationship between FRQ-protein stability and temperature compensation in the Neurospora circadian clock.

Authors:  Peter Ruoff; Jennifer J Loros; Jay C Dunlap
Journal:  Proc Natl Acad Sci U S A       Date:  2005-11-28       Impact factor: 11.205

Review 10.  Synthetic biology.

Authors:  Steven A Benner; A Michael Sismour
Journal:  Nat Rev Genet       Date:  2005-07       Impact factor: 53.242

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  15 in total

1.  Feasibility of Incorporating Test-Retest Reliability and Model Diversity in Identification of Key Neuromuscular Pathways During Head Position Tracking.

Authors:  Ahmed Ramadan; Jongeun Choi; Jacek Cholewicki; N Peter Reeves; John M Popovich; Clark J Radcliffe
Journal:  IEEE Trans Neural Syst Rehabil Eng       Date:  2019-01-10       Impact factor: 3.802

2.  Sensitivity Measures for Oscillating Systems: Application to Mammalian Circadian Gene Network.

Authors:  Stephanie R Taylor; Rudiyanto Gunawan; Linda R Petzold; Francis J Doyle
Journal:  IEEE Trans Automat Contr       Date:  2008-01-01       Impact factor: 5.792

Review 3.  Systems engineering medicine: engineering the inflammation response to infectious and traumatic challenges.

Authors:  Robert S Parker; Gilles Clermont
Journal:  J R Soc Interface       Date:  2010-02-10       Impact factor: 4.118

4.  A specialized ODE integrator for the efficient computation of parameter sensitivities.

Authors:  Pedro Gonnet; Sotiris Dimopoulos; Lukas Widmer; Jörg Stelling
Journal:  BMC Syst Biol       Date:  2012-05-20

5.  Systems biology: new institute and applications.

Authors:  Jieming Chen
Journal:  Yale J Biol Med       Date:  2011-03

6.  Comparison between elementary flux modes analysis and 13C-metabolic fluxes measured in bacterial and plant cells.

Authors:  Marie Beurton-Aimar; Bertrand Beauvoit; Antoine Monier; François Vallée; Martine Dieuaide-Noubhani; Sophie Colombié
Journal:  BMC Syst Biol       Date:  2011-06-20

7.  Iron behaving badly: inappropriate iron chelation as a major contributor to the aetiology of vascular and other progressive inflammatory and degenerative diseases.

Authors:  Douglas B Kell
Journal:  BMC Med Genomics       Date:  2009-01-08       Impact factor: 3.063

8.  Increasing the efficiency of bacterial transcription simulations: when to exclude the genome without loss of accuracy.

Authors:  Marco A J Iafolla; Guang Qiang Dong; David R McMillen
Journal:  BMC Bioinformatics       Date:  2008-09-12       Impact factor: 3.169

Review 9.  Optimization in computational systems biology.

Authors:  Julio R Banga
Journal:  BMC Syst Biol       Date:  2008-05-28

10.  Information-theoretic sensitivity analysis: a general method for credit assignment in complex networks.

Authors:  Niklas Lüdtke; Stefano Panzeri; Martin Brown; David S Broomhead; Joshua Knowles; Marcelo A Montemurro; Douglas B Kell
Journal:  J R Soc Interface       Date:  2008-02-06       Impact factor: 4.118

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