Literature DB >> 15546936

Grid cellware: the first grid-enabled tool for modelling and simulating cellular processes.

Pawan K Dhar1, Tan Chee Meng, Sandeep Somani, Li Ye, Kishore Sakharkar, Arun Krishnan, Azmi B M Ridwan, Sebastian Ho Kok Wah, Mandar Chitre, Zhu Hao.   

Abstract

Modelling and simulation of complex cellular transactions involve development of platforms that understand diverse mathematical representations and are capable of handling large backend computations. Grid Cellware, an integrated modelling and simulation tool, has been developed to precisely address these niche requirements of the modelling community. Grid Cellware implements various pathway simulation algorithms along with adaptive Swarm algorithm for parameter estimation. For enchanced computational productivity Grid Cellware uses grid technology with Globus as the middleware.

Mesh:

Year:  2004        PMID: 15546936     DOI: 10.1093/bioinformatics/bti143

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  7 in total

1.  Biochemical simulations: stochastic, approximate stochastic and hybrid approaches.

Authors:  Jürgen Pahle
Journal:  Brief Bioinform       Date:  2009-01-16       Impact factor: 11.622

Review 2.  Kinetic modeling of biological systems.

Authors:  Haluk Resat; Linda Petzold; Michel F Pettigrew
Journal:  Methods Mol Biol       Date:  2009

3.  Novel metaheuristic for parameter estimation in nonlinear dynamic biological systems.

Authors:  Maria Rodriguez-Fernandez; Jose A Egea; Julio R Banga
Journal:  BMC Bioinformatics       Date:  2006-11-02       Impact factor: 3.169

4.  Modeling biochemical transformation processes and information processing with Narrator.

Authors:  Johannes J Mandel; Hendrik Fuss; Niall M Palfreyman; Werner Dubitzky
Journal:  BMC Bioinformatics       Date:  2007-03-27       Impact factor: 3.169

5.  Transition to quorum sensing in an Agrobacterium population: A stochastic model.

Authors:  Andrew B Goryachev; Da-Jun Toh; Keng Boon Wee; Travis Lee; Hai-Bao Zhang; Lian-Hui Zhang
Journal:  PLoS Comput Biol       Date:  2005-09-16       Impact factor: 4.475

6.  On designing multicore-aware simulators for systems biology endowed with OnLine statistics.

Authors:  Marco Aldinucci; Cristina Calcagno; Mario Coppo; Ferruccio Damiani; Maurizio Drocco; Eva Sciacca; Salvatore Spinella; Massimo Torquati; Angelo Troina
Journal:  Biomed Res Int       Date:  2014-06-22       Impact factor: 3.411

7.  Phenotypic signatures arising from unbalanced bacterial growth.

Authors:  Cheemeng Tan; Robert Phillip Smith; Ming-Chi Tsai; Russell Schwartz; Lingchong You
Journal:  PLoS Comput Biol       Date:  2014-08-07       Impact factor: 4.475

  7 in total

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