Year: 2012
Type: article
Abstract: BACKGROUND: Integration of metabolic pathways resources and metabolic network models, and deploying new tools on the integrated platform can help perform more effective and more efficient systems biology research on understanding the regulation of metabolic networks. Therefore, the tasks of (a) integrating under a single database environment regulatory metabolic networks and existing models, and (b) building tools to help with modeling and analysis are desirable and intellectually challenging computational tasks. RESULTS: PathCase Systems Biology (PathCase-SB) is built and released. This paper describes PathCase-SB user interfaces developed to date. The current PathCase-SB system provides a database-enabled framework and web-based computational tools towards facilitating the development of kinetic models for biological systems. PathCase-SB aims to integrate systems biology models data and metabolic network data of selected biological data sources on the web (currently, BioModels Database and KEGG, respectively), and to provide more powerful and/or new capabilities via the new web-based integrative framework. CONCLUSIONS: Each of the current four PathCase-SB interfaces, namely, Browser, Visualization, Querying, and Simulation interfaces, have expanded and new capabilities as compared with the original data sources. PathCase-SB is already available on the web and being used by researchers across the globe.
Source: BMC Systems Biology
Institutions: Case Western Reserve University, Medical College of Wisconsin
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: gold
Estimated APC paid: $2,290
Awards: G1245891105, A Web-Based Data Source for Metabolomics Analysis, Systems Biology Approach to Growth Regulation in Cystic Fibrosis, Database-Enabled Tools for Regulatory Metabolic Networks, CRI: Infrastructure for Managing and Analyzing Large Scale Biological Data via Utility Computing, G7678081043
OpenAlex ID: W1978435670