Literature DB >> 14871872

Cellware--a multi-algorithmic software for computational systems biology.

Pawan Dhar1, Tan Chee Meng, Sandeep Somani, Li Ye, Anand Sairam, Mandar Chitre, Zhu Hao, Kishore Sakharkar.   

Abstract

UNLABELLED: The intracellular environment of a cell hosts a wide variety of enzymatic reactions, diffusion events, molecular binding, polymerization and metabolic channeling. To transform these biological events into a computational framework, distinct modeling strategies are required. While currently no tool is capable of capturing all these events, progress is being made to create an integrated environment for the modeling community. To address this niche requirement, Cellware has been developed to offer a multi-algorithmic environment for modeling and simulating both deterministic and stochastic events in the cell. AVAILABILITY: The software is available for free and can be downloaded from http://www.bii.a-star.edu.sg/sbg/cellware

Mesh:

Year:  2004        PMID: 14871872     DOI: 10.1093/bioinformatics/bth067

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


  14 in total

Review 1.  Systems biology in immunology: a computational modeling perspective.

Authors:  Ronald N Germain; Martin Meier-Schellersheim; Aleksandra Nita-Lazar; Iain D C Fraser
Journal:  Annu Rev Immunol       Date:  2011       Impact factor: 28.527

Review 2.  Understanding diseases by mouse click: the promise and potential of computational approaches in Systems Biology.

Authors:  F Klauschen; B R Angermann; M Meier-Schellersheim
Journal:  Clin Exp Immunol       Date:  2007-07-30       Impact factor: 4.330

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

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

4.  The mechanism by which a propeptide-encoded pH sensor regulates spatiotemporal activation of furin.

Authors:  Danielle M Williamson; Johannes Elferich; Parvathy Ramakrishnan; Gary Thomas; Ujwal Shinde
Journal:  J Biol Chem       Date:  2013-05-07       Impact factor: 5.157

Review 5.  Multiscale modeling for biologists.

Authors:  Martin Meier-Schellersheim; Iain D C Fraser; Frederick Klauschen
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2009 Jul-Aug

6.  Tracing the footsteps of autophagy in computational biology.

Authors:  Dipanka Tanu Sarmah; Nandadulal Bairagi; Samrat Chatterjee
Journal:  Brief Bioinform       Date:  2021-07-20       Impact factor: 11.622

7.  Metabolic pathways variability and sequence/networks comparisons.

Authors:  Kyaw Tun; Pawan K Dhar; Maria Concetta Palumbo; Alessandro Giuliani
Journal:  BMC Bioinformatics       Date:  2006-01-18       Impact factor: 3.169

8.  Computational systems biology in cancer: modeling methods and applications.

Authors:  Wayne Materi; David S Wishart
Journal:  Gene Regul Syst Bio       Date:  2007-09-17

9.  Stochastic simulation and analysis of biomolecular reaction networks.

Authors:  John M Frazier; Yaroslav Chushak; Brent Foy
Journal:  BMC Syst Biol       Date:  2009-06-17

10.  Systems biology, bioinformatics, and biomarkers in neuropsychiatry.

Authors:  Ali Alawieh; Fadi A Zaraket; Jian-Liang Li; Stefania Mondello; Amaly Nokkari; Mahdi Razafsha; Bilal Fadlallah; Rose-Mary Boustany; Firas H Kobeissy
Journal:  Front Neurosci       Date:  2012-12-24       Impact factor: 4.677

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