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PathCase-SB: database-enabled tools for regulatory metabolic networks

PathCase-SB: database-enabled tools for regulatory metabolic networks 3 Systems and Prototypes PathCase-SB: Database-Enabled Tools for Regulatory Metabolic Networks X. Qi, S.A. Coskun, A. Cakmak, E. Cheng, E. A.Cicek, M. Das, L. Yang, R. Jadeja, S. Syed, R.K. Dash, N. Lai, G. Özsoyolu, Z. M. Özsoyolu ABSTRACT Integration of metabolic pathways resources and metabolic network models, and deploying new tools on the integrated platform is useful for systems biology research on understanding the regulation of metabolic networks. PathCase-SB is such an integrative a web-based application, providing a database-enabled framework and tools towards effective and efficient systems biology model development for mechanistic simulations of biological systems. Current PathCase-SB user interfaces include browser, querying, visualization, provenance, simulation and model composition interfaces. PathCase-SB is built, released, and already being used by researchers across the globe. INTRODUCTION PathCase Systems Biology (PathCase-SB) is a web-based application that brings together (a) systems biology data sources (currently BioModels Database [1]), and (b) pathways data sources (currently, KEGG [2]), with the goal of providing additional and new capabilities and tools, made possible due to the integration. The premise is that the integrated use of regulatory metabolic network models and metabolic pathways resources allows for new capabilities and tools to be built that would not http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png ACM SIGBioinformatics Record Association for Computing Machinery

PathCase-SB: database-enabled tools for regulatory metabolic networks

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Publisher
Association for Computing Machinery
Copyright
Copyright © 2012 by ACM Inc.
ISSN
2331-9291
DOI
10.1145/2384691.2384696
Publisher site
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Abstract

3 Systems and Prototypes PathCase-SB: Database-Enabled Tools for Regulatory Metabolic Networks X. Qi, S.A. Coskun, A. Cakmak, E. Cheng, E. A.Cicek, M. Das, L. Yang, R. Jadeja, S. Syed, R.K. Dash, N. Lai, G. Özsoyolu, Z. M. Özsoyolu ABSTRACT Integration of metabolic pathways resources and metabolic network models, and deploying new tools on the integrated platform is useful for systems biology research on understanding the regulation of metabolic networks. PathCase-SB is such an integrative a web-based application, providing a database-enabled framework and tools towards effective and efficient systems biology model development for mechanistic simulations of biological systems. Current PathCase-SB user interfaces include browser, querying, visualization, provenance, simulation and model composition interfaces. PathCase-SB is built, released, and already being used by researchers across the globe. INTRODUCTION PathCase Systems Biology (PathCase-SB) is a web-based application that brings together (a) systems biology data sources (currently BioModels Database [1]), and (b) pathways data sources (currently, KEGG [2]), with the goal of providing additional and new capabilities and tools, made possible due to the integration. The premise is that the integrated use of regulatory metabolic network models and metabolic pathways resources allows for new capabilities and tools to be built that would not

Journal

ACM SIGBioinformatics Record – Association for Computing Machinery

Published: Sep 1, 2012

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