DOE Kbase

A DOE Kbase is a domain-specific knowledge base for systems biology.

• AKA: Kbase, DOE Systems Biology Knowledgebase.
• See: Gene Ontology, MeSH.

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References

2011

• http://genomicscience.energy.gov/compbio/ComputingProjects_flyer.pdf
  • To provide the research community with such a resource, the Genomic Science program is developing the DOE Systems Biology Knowledgebase (Kbase; see Fig. 1). A knowledgebase is a cyberinfrastructure consisting of a collection of data, organizational methods, standards, analysis tools, and interfaces representing a dynamic body of knowledge.

    The fully functional Kbase is a cyberinfrastructure for systems biology information and data that supports open community science. It not only will include data storage, retrieval, integration, and management, but also will enable new knowledge acquisition through free and open access to data, analysis tools, resources for modeling and simulation, and information for the research community. ...

  • Kbase will be a community-driven software framework enabling data-driven prediction of microbial, plant, and biological community function in an environmental context. Extensible and scalable, Kbase also will feature open architecture, source code, and development. … The Kbase framework is a collaborative partnership between DOE national laboratories and research universities. Leading the collaboration is principal investigator Adam Arkin of Lawrence Berkeley National Laboratory (LBNL), with co-principal investigators Rick Stevens of Argonne National Laboratory (ANL), Robert Cottingham of Oak Ridge National Laboratory (ORNL), and Sergei Maslov of Brookhaven National Laboratory (BNL).

2010

• DOE Systems Biology Knowledgebase Implementation Plan http://genomicscience.energy.gov/compbio/kbase_plan/kbaseimplementationplan.pdf

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