Literature DB >> 15454409

Modelling cellular systems with PySCeS.

Brett G Olivier1, Johann M Rohwer, Jan-Hendrik S Hofmeyr.   

Abstract

UNLABELLED: The Python Simulator for Cellular Systems (PySCeS) is an extendable research tool for the numerical analysis and investigation of cellular systems. AVAILABILITY: PySCeS is distributed as Open Source Software under the GNU General Public Licence and is available for download from http://pysces.sourceforge.net CONTACT: bgoli@sun.ac.za.

Mesh：

Year:  2004        PMID： 15454409     DOI： 10.1093/bioinformatics/bti046

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


  59 in total

Review 1.  Computational tools for metabolic engineering.

Authors:  Wilbert B Copeland; Bryan A Bartley; Deepak Chandran; Michal Galdzicki; Kyung H Kim; Sean C Sleight; Costas D Maranas; Herbert M Sauro
Journal:  Metab Eng       Date:  2012-05       Impact factor: 9.783

2.  Simulating plant metabolic pathways with enzyme-kinetic models.

Authors:  Kai Schallau; Björn H Junker
Journal:  Plant Physiol       Date:  2010-01-29       Impact factor: 8.340

3.  Pycellerator: an arrow-based reaction-like modelling language for biological simulations.

Authors:  Bruce E Shapiro; Eric Mjolsness
Journal:  Bioinformatics       Date:  2015-10-26       Impact factor: 6.937

4.  A portable structural analysis library for reaction networks.

Authors:  Yosef Bedaso; Frank T Bergmann; Kiri Choi; Kyle Medley; Herbert M Sauro
Journal:  Biosystems       Date:  2018-05-30       Impact factor: 1.973

5.  Antimony: a modular model definition language.

Authors:  Lucian P Smith; Frank T Bergmann; Deepak Chandran; Herbert M Sauro
Journal:  Bioinformatics       Date:  2009-07-03       Impact factor: 6.937

Review 6.  Standards and ontologies in computational systems biology.

Authors:  Herbert M Sauro; Frank T Bergmann
Journal:  Essays Biochem       Date:  2008       Impact factor: 8.000

7.  Computer-aided design of biological circuits using TinkerCell.

Authors:  Deepak Chandran; Frank T Bergmann; Herbert M Sauro
Journal:  Bioeng Bugs       Date:  2010 Jul-Aug

8.  libRoadRunner: a high performance SBML simulation and analysis library.

Authors:  Endre T Somogyi; Jean-Marie Bouteiller; James A Glazier; Matthias König; J Kyle Medley; Maciej H Swat; Herbert M Sauro
Journal:  Bioinformatics       Date:  2015-06-17       Impact factor: 6.937

Review 9.  Design Automation in Synthetic Biology.

Authors:  Evan Appleton; Curtis Madsen; Nicholas Roehner; Douglas Densmore
Journal:  Cold Spring Harb Perspect Biol       Date:  2017-04-03       Impact factor: 10.005

10.  TinkerCell: modular CAD tool for synthetic biology.

Authors:  Deepak Chandran; Frank T Bergmann; Herbert M Sauro
Journal:  J Biol Eng       Date:  2009-10-29       Impact factor: 4.355
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