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KBase workshop at the 2013 Annual Great Lakes Bioenergy Research Center (GLBRC) Retreat

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Posted by nlharris under News
Chris Henry (Argonne National Laboratory) and Doreen Ware (Cold Spring Harbor Laboratory) recently presented a plenary talk and hands-on workshop at the 2013 Annual Great Lakes Bioenergy Research Center (GLBRC) Retreat in South Bend, Indiana, May 21-23. The workshop demonstrated how to use KBase to do genome annotation, build metabolic models, perform plant GWAS analysis, annotate microbial communities and assess sequence quality.
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KBase at ASM 2013

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Posted by nlharris
The 113th General Meeting of the American Society for Microbiology (ASM, http://gm.asm.org/) took place May 18-21 in Denver, Colorado, and KBase was there. KBase head of Outreach, Elizabeth Glass, ran the KBase booth, which was visited by hundreds of interested researchers, educators, and students eager to hear more about how KBase can help them with their research. Adam Arkin, Principal Investigator of KBase, presented a poster about the project.
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Poster and flash talk at at the Genomic Standards Consortium's "Standards-enabled Research in Genomics" meeting

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Posted by nlharris
Elizabeth Glass, KBase's Outreach lead, presented a flash talk and poster entitled "KBase: An Integrated Knowledgebase for Predictive Biology and Environmental Research", at the Genomic Standards Consortium's "Standards-enabled Research in Genomics" (GSC15) meeting at the National Institutes of Health on April 22, 2013.
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The Department of Energy Systems Biology Knowledgebase (KBase)  is an emerging software and data environment designed to enable researchers to collaboratively generate, test and share new hypotheses about gene and protein functions, perform large-scale analyses on a scalable computing infrastructure, and model interactions in microbes, plants, and their communities. KBase provides an open, extensible framework for secure sharing of data, tools, and scientific conclusions in predictive and systems biology.

 KBase includes

  • 925 data types
  • 5695 prokaryotic genomes
  • 175 eukaryotic genomes
  • 4985 models
  • 23 services
  • 821 functions

Search the database:                  tiny-red-block-letter-beta.gif   Advanced search

 What can KBase do?

  • Efficiently annotate new microbial genomes and infer metabolic and regulatory networks.
  • Transform network inferences into metabolic models and map missing reactions to genes using novel data reconciliation tools.
  • Test microbial ecological hypotheses through taxonomic and functional analysis of quality-assessed metagenomic data
  • Discover genetic variations within plant populations and map these to complex organismal traits.

Learn about KBase's plans for richer user interfaces