Literature DB >> 12241068

Java Web Simulation (JWS); a web based database of kinetic models.

J L Snoep1, B G Olivier.   

Abstract

Software to make a database of kinetic models accessible via the internet has been developed and a core database has been set up at http://jjj.biochem.sun.ac.za/. This repository of models, available to everyone with internet access, opens a whole new way in which we can make our models public. Via the database, a user can change enzyme parameters and run time simulations or steady state analyses. The interface is user friendly and no additional software is necessary. The database currently contains 10 models, but since the generation of the program code to include new models has largely been automated the addition of new models is straightforward and people are invited to submit their models to be included in the database.

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Year:  2002        PMID: 12241068     DOI: 10.1023/a:1020350518131

Source DB:  PubMed          Journal:  Mol Biol Rep        ISSN: 0301-4851            Impact factor:   2.316


  9 in total

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Journal:  Trends Biochem Sci       Date:  1997-09       Impact factor: 13.807

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Journal:  J Theor Biol       Date:  1988-11-21       Impact factor: 2.691

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Journal:  Eur J Biochem       Date:  1974-02-15

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Journal:  Comput Appl Biosci       Date:  1993-08

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8.  Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry.

Authors:  B Teusink; J Passarge; C A Reijenga; E Esgalhado; C C van der Weijden; M Schepper; M C Walsh; B M Bakker; K van Dam; H V Westerhoff; J L Snoep
Journal:  Eur J Biochem       Date:  2000-09

9.  Overproduction of glycolytic enzymes in yeast.

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Journal:  Yeast       Date:  1989 Jul-Aug       Impact factor: 3.239

  9 in total
  6 in total

1.  Oncogenes are to lose control on signaling following mutation: should we aim off target?

Authors:  Jorrit J Hornberg; Hans V Westerhoff
Journal:  Mol Biotechnol       Date:  2006-10       Impact factor: 2.695

Review 2.  Designing and encoding models for synthetic biology.

Authors:  Lukas Endler; Nicolas Rodriguez; Nick Juty; Vijayalakshmi Chelliah; Camille Laibe; Chen Li; Nicolas Le Novère
Journal:  J R Soc Interface       Date:  2009-04-01       Impact factor: 4.118

3.  BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models.

Authors:  Chen Li; Marco Donizelli; Nicolas Rodriguez; Harish Dharuri; Lukas Endler; Vijayalakshmi Chelliah; Lu Li; Enuo He; Arnaud Henry; Melanie I Stefan; Jacky L Snoep; Michael Hucka; Nicolas Le Novère; Camille Laibe
Journal:  BMC Syst Biol       Date:  2010-06-29

4.  The Cell Collective: toward an open and collaborative approach to systems biology.

Authors:  Tomáš Helikar; Bryan Kowal; Sean McClenathan; Mitchell Bruckner; Thaine Rowley; Alex Madrahimov; Ben Wicks; Manish Shrestha; Kahani Limbu; Jim A Rogers
Journal:  BMC Syst Biol       Date:  2012-08-07

5.  Design principles of nuclear receptor signaling: how complex networking improves signal transduction.

Authors:  Alexey N Kolodkin; Frank J Bruggeman; Nick Plant; Martijn J Moné; Barbara M Bakker; Moray J Campbell; Johannes P T M van Leeuwen; Carsten Carlberg; Jacky L Snoep; Hans V Westerhoff
Journal:  Mol Syst Biol       Date:  2010-12-21       Impact factor: 11.429

6.  Advice from a systems-biology model of the corona epidemics.

Authors:  Hans V Westerhoff; Alexey N Kolodkin
Journal:  NPJ Syst Biol Appl       Date:  2020-06-12
  6 in total

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