CytoModeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling

Summary: CytoModeler is an open-source Java application based on the Cytoscape platform. It integrates large-scale network analysis and quantitative modeling by combining omics analysis on the Cytoscape platform, access to deterministic and stochastic simulators, and static and dynamic network conte...

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Detalles Bibliográficos
Autores principales: Xia, Tian, Van Hemert, John, Dickerson, Julie A.
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2011
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3102219/
https://www.ncbi.nlm.nih.gov/pubmed/21511714
http://dx.doi.org/10.1093/bioinformatics/btr150
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author Xia, Tian
Van Hemert, John
Dickerson, Julie A.
author_facet Xia, Tian
Van Hemert, John
Dickerson, Julie A.
author_sort Xia, Tian
collection PubMed
description Summary: CytoModeler is an open-source Java application based on the Cytoscape platform. It integrates large-scale network analysis and quantitative modeling by combining omics analysis on the Cytoscape platform, access to deterministic and stochastic simulators, and static and dynamic network context visualizations of simulation results. Availability: Implemented in Java, CytoModeler runs with Cytoscape 2.6 and 2.7. Binaries, documentation and video walkthroughs are freely available at http://vrac.iastate.edu/~jlv/cytomodeler/. Contact: julied@iastate.edu; netscape@iastate.edu Supplementary Information: Supplementary data are available at Bioinformatics online.
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spelling pubmed-31022192011-05-31 CytoModeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling Xia, Tian Van Hemert, John Dickerson, Julie A. Bioinformatics Applications Note Summary: CytoModeler is an open-source Java application based on the Cytoscape platform. It integrates large-scale network analysis and quantitative modeling by combining omics analysis on the Cytoscape platform, access to deterministic and stochastic simulators, and static and dynamic network context visualizations of simulation results. Availability: Implemented in Java, CytoModeler runs with Cytoscape 2.6 and 2.7. Binaries, documentation and video walkthroughs are freely available at http://vrac.iastate.edu/~jlv/cytomodeler/. Contact: julied@iastate.edu; netscape@iastate.edu Supplementary Information: Supplementary data are available at Bioinformatics online. Oxford University Press 2011-06-01 2011-04-20 /pmc/articles/PMC3102219/ /pubmed/21511714 http://dx.doi.org/10.1093/bioinformatics/btr150 Text en © The Author(s) 2011. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Note
Xia, Tian
Van Hemert, John
Dickerson, Julie A.
CytoModeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling
title CytoModeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling
title_full CytoModeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling
title_fullStr CytoModeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling
title_full_unstemmed CytoModeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling
title_short CytoModeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling
title_sort cytomodeler: a tool for bridging large-scale network analysis and dynamic quantitative modeling
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3102219/
https://www.ncbi.nlm.nih.gov/pubmed/21511714
http://dx.doi.org/10.1093/bioinformatics/btr150
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AT vanhemertjohn cytomodeleratoolforbridginglargescalenetworkanalysisanddynamicquantitativemodeling
AT dickersonjuliea cytomodeleratoolforbridginglargescalenetworkanalysisanddynamicquantitativemodeling

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