A collaborative, open environment for systems biology

of plants, microbes and their communities

KBase: The U.S. Department of Energy Systems Biology Knowledgebase



In KBase, you can create shareable, reproducible workflows called Narratives that include data, analysis steps, results, visualizations and commentary.

Research Highlights

KBase annotation and metabolic modeling pipelines were used to analyze a 13-species electrosynthetic community that captures electrons from a cathode and fixes carbon dioxide. Metabolic models of the predominant community members revealed that Acetobacterium is the primary carbon fixer for the community, excreting large amounts of acetate which serves as the main carbon source for the rest of the community.

In a Journal of Cellular Physiology cover article, KBase scientist Christopher Henry and collaborators demonstrate strategies for constructing genome-scale metabolic networks that simulate two species in a microbial consortium exchanging metabolites to sustain life.

Integrated Data and Tools

Analyze a wide range of public bioinformatics data together with your own data.

 

Explore KBase’s analysis tools (Apps) in the App Catalog.

 

Transfer high-throughput sequencing data from   the JGI Genome Portal to KBase for analysis.

 

KBase is an open platform — find out how to add your own analysis tools!

 

News
Latest News

Profile of KBase Engineer Arfath Pasha

KBase staff member Arfath Pasha, an advanced applications engineer at Brookhaven National Lab (BNL), is part of the team working to improve the infrastructure and search capabilities of the knowledgebase. Arfath brings his engineering expertise to the project and highlights how KBase facilitates collaboration between those who use the system and help develop it. He […]

Webinar on May 16

Getting Started with KBase May 16, 2018 at 1pm EDT https://bluejeans.com/239747866 Join us on May 16th at 1pm EDT for a webinar that will help you start using KBase for your systems biology and bioinformatics research! KBase is a knowledge creation and discovery environment designed for both biologists and bioinformaticians. KBase specialist Ben Allen will […]

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