Skip to main content
Premium Trial:

Request an Annual Quote

GenomeQuest, SGI Deploy Genome Analysis Platform for Ag Biotech Research at Biogemma


GenomeQuest and SGI have deployed a high-performance computing solution for agriculture-based genomic data analysis at French biotech firm Biogemma, the companies said this week.

Financial terms of the agreement were not disclosed.

The system, which has been installed at Biogemma's headquarters in Clermont—Ferrand, France, implements GenomeQuest's RNA-seq analysis, multi-genome analysis, de novo assembly, and polymorphism discovery workflows on SGI's Altix UV 1000 supercomputer.

Initially, researchers at Biogemma plan to use the platform to analyze genomic data from maize, wheat, canola, and sunflower.

The system lets researchers do things like "identify SNP and structural variations between individual plants and across hundreds of samples," Olivier Dugas, head of upstream genomics at Biogemma, said in a statement.

“With the advent of next-generation sequencing, our data delivery rate for species of interest is approaching hundreds of gigabases per month and we will be dealing in terabytes by the end of 2011," Dugas added.

Biogemma is focused on projects that aim to improve crop yields, increase resistance to biotic and abiotic stress, as well as specialty grain compounds.

The partners said they plan to integrate additional statistical and pathway tools for further data analysis and they estimate that by the end of next year, the system will support more than 80 terabytes of data.

GenomeQuest and SGI began collaborating earlier this year to develop a software/hardware architecture optimized for whole-genome analysis (BI 8/27/2010).

The Scan

Shape of Them All

According to BBC News, researchers have developed a protein structure database that includes much of the human proteome.

For Flu and More

The Wall Street Journal reports that several vaccine developers are working on mRNA-based vaccines for influenza.

To Boost Women

China's Ministry of Science and Technology aims to boost the number of female researchers through a new policy, reports the South China Morning Post.

Science Papers Describe Approach to Predict Chemotherapeutic Response, Role of Transcriptional Noise

In Science this week: neural network to predict chemotherapeutic response in cancer patients, and more.