Literature DB >> 18463116

SYCAMORE--a systems biology computational analysis and modeling research environment.

Andreas Weidemann1, Stefan Richter, Matthias Stein, Sven Sahle, Ralph Gauges, Razif Gabdoulline, Irina Surovtsova, Nils Semmelrock, Bruno Besson, Isabel Rojas, Rebecca Wade, Ursula Kummer.   

Abstract

UNLABELLED: SYCAMORE is a browser-based application that facilitates construction, simulation and analysis of kinetic models in systems biology. Thus, it allows e.g. database supported modelling, basic model checking and the estimation of unknown kinetic parameters based on protein structures. In addition, it offers some guidance in order to allow non-expert users to perform basic computational modelling tasks. AVAILABILITY: SYCAMORE is freely available for academic use at http://sycamore.eml.org. Commercial users may acquire a license. CONTACT: ursula.kummer@bioquant.uni-heidelberg.de.

Mesh：

Year:  2008        PMID： 18463116     DOI： 10.1093/bioinformatics/btn207

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


  12 in total

Review 1.  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

2.  Web-based applications for building, managing and analysing kinetic models of biological systems.

Authors:  Dong-Yup Lee; Rajib Saha; Faraaz Noor Khan Yusufi; Wonjun Park; Iftekhar A Karimi
Journal:  Brief Bioinform       Date:  2008-09-19       Impact factor: 11.622

Review 3.  The Human Physiome: how standards, software and innovative service infrastructures are providing the building blocks to make it achievable.

Authors:  David Nickerson; Koray Atalag; Bernard de Bono; Jörg Geiger; Carole Goble; Susanne Hollmann; Joachim Lonien; Wolfgang Müller; Babette Regierer; Natalie J Stanford; Martin Golebiewski; Peter Hunter
Journal:  Interface Focus       Date:  2016-04-06       Impact factor: 3.906

Review 4.  Mathematical descriptions of biochemical networks: stability, stochasticity, evolution.

Authors:  Simon Rosenfeld
Journal:  Prog Biophys Mol Biol       Date:  2011-03-22       Impact factor: 3.667

5.  Combining hypothesis- and data-driven neuroscience modeling in FAIR workflows.

Authors:  Olivia Eriksson; Upinder Singh Bhalla; Kim T Blackwell; Sharon M Crook; Daniel Keller; Andrei Kramer; Marja-Leena Linne; Ausra Saudargienė; Rebecca C Wade; Jeanette Hellgren Kotaleski
Journal:  Elife       Date:  2022-07-06       Impact factor: 8.713

6.  The interaction properties of the human Rab GTPase family--comparative analysis reveals determinants of molecular binding selectivity.

Authors:  Matthias Stein; Manohar Pilli; Sabine Bernauer; Bianca H Habermann; Marino Zerial; Rebecca C Wade
Journal:  PLoS One       Date:  2012-04-16       Impact factor: 3.240

7.  Systematic integration of experimental data and models in systems biology.

Authors:  Peter Li; Joseph O Dada; Daniel Jameson; Irena Spasic; Neil Swainston; Kathleen Carroll; Warwick Dunn; Farid Khan; Naglis Malys; Hanan L Messiha; Evangelos Simeonidis; Dieter Weichart; Catherine Winder; Jill Wishart; David S Broomhead; Carole A Goble; Simon J Gaskell; Douglas B Kell; Hans V Westerhoff; Pedro Mendes; Norman W Paton
Journal:  BMC Bioinformatics       Date:  2010-11-29       Impact factor: 3.169

8.  SABIO-RK--database for biochemical reaction kinetics.

Authors:  Ulrike Wittig; Renate Kania; Martin Golebiewski; Maja Rey; Lei Shi; Lenneke Jong; Enkhjargal Algaa; Andreas Weidemann; Heidrun Sauer-Danzwith; Saqib Mir; Olga Krebs; Meik Bittkowski; Elina Wetsch; Isabel Rojas; Wolfgang Müller
Journal:  Nucleic Acids Res       Date:  2011-11-18       Impact factor: 16.971

9.  Proceedings of the 2009 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. Introduction.

Authors:  Jonathan D Wren; Yuriy Gusev; Raphael D Isokpehi; Daniel Berleant; Ulisses Braga-Neto; Dawn Wilkins; Susan Bridges
Journal:  BMC Bioinformatics       Date:  2009-10-08       Impact factor: 3.169

10.  PROMOT: modular modeling for systems biology.

Authors:  Sebastian Mirschel; Katrin Steinmetz; Michael Rempel; Martin Ginkel; Ernst Dieter Gilles
Journal:  Bioinformatics       Date:  2009-01-15       Impact factor: 6.937
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.