Seminars & Events

Mathematics and Computer Science Division
"Soil metagenome assembly: diverse data, diverse challenges"

DATE: May 24, 2011
TIME: 10:00 AM - 12:00 PM
SPEAKER: Titus Brown
LOCATION: Bldg 240 Conference Rm: 4301, ANL
HOST: Narayan Desai

Description:
Soil contains one of the most diverse and unexplored microbial populations on the planet. As part of the Great Prairie DOE project, the JGI has generated several terabases (10**12) of whole metagenome shotgun sequence from a number of sites in the mid-west. Due to the lack of reference genomes, the short reads produced by the Illumina sequencers, and the volume of data, we have chosen to apply a de novo assembly approach to this data. This in turn has been extremely challenging because existing assemblers are poorly equipped to deal with large volumes of metagenomic data. We have developed a novel approach to assembly in order to solve these issues, and are also applying this approach to massive-scale mRNAseq assembly.

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