Opening For Software Developer – Pathogen Genomics

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Amar Annamalai
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Opening For Software Developer – Pathogen Genomics

 A highly motivated Software Developer is required, to design and implement a web based application to store and display details for over 40,000 bacterial and viral genomes.
The Wellcome Trust Sanger Institute (WTSI) is Europe’s leading genome research institute. Funded primarily by the Wellcome Trust, we use high-throughput genomics-based techniques to investigate host and pathogen genetics. The pathogen group is applying large-scale next-generation sequencing technologies to pathogen populations to track transmission pathways and identify determinants of drug resistance and virulence.
Recently the Pathogen Genomics group at the WTSI has been funded as part of an international consortium to develop an effective programme of surveillance to control infectious diseases. An important component of this is to be able to identify the causative pathogens. Accurate identification would allow strains to be compared to confirm whether or not an outbreak involving spread of a particular strain is occurring, and could be used as an early warning system to detect the spread of certain strains of clinical importance through the population.
Therefore, we aim to work together with our partners to develop a technological solution based on the comparison of bacterial and viral genome sequences. A database will be required to store and query the meta-data (e.g. sample identifiers, geographical origin, infection severity etc.) for 20,000 bacterial genomes (~60Gb) and 20,000 viral genomes (0.3 Gb). The assembled genome sequences will be provided from an already existing pipeline for each sample.
We are seeking a strong scientific programmer to design and develop this tracking and data analysis system. An important component of this work will be to develop web based interfaces to the system to link and present the data for both internal and external partners in the project.

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