Position: Bioinformatician/Software Developer (PanCancer)
Site: MaRS Centre, Toronto
Department: Informatics & Biocomputing
Reports To: Manager and Senior Software Architect
Salary: Commensurate with level of experience
Hours: 35 Hrs/week
Status: Contract, Full-time (1 year)
Vacancies: 2 vacancies
The Ontario Institute for Cancer Research (OICR) is looking for a Bioinformatician to contribute to the ICGC/TCGA PanCancer project. This is an extraordinary project that brings together hundreds of scientists and will result in the comprehensive analysis of approximately 5,000 whole human genomes across 6 geographically dispersed cloud environments. This full-time, contract position is primarily focused on using sophisticated, cloud-based technologies to enable the consistent biological analysis of core data types such as alignments and variants like SNVs, small indels, copy number, etc. A successful candidate will use cloud technologies such as Bindle (http://github.com/CloudBindle) and SeqWare (http://seqware.io) in conjunction with Big Data frameworks and common bioinformatics tools to conduct the standardized analysis used by researchers in this project. Experience with automation, Linux and cloud technologies, and operating on sequence data at the trillion-base scale are highly desirable
The responsibilities include:
- Work closely with the PanCancer research community to drive common analysis technique standardization
- Use and develop cloud-provisioning technologies such as Bindle
- Use workflow technologies such as SeqWare to create standardized, bioinformatics analytical workflows
- Automate the running of workflows on the PanCancer 5,000 whole human genomes across 6 cloud environments
- Contribute to the sharing of analysis results with the PanCancer community
- Work closely with PanCancer analysis working groups to automate their analysis and scale across our cloud environments
- Perform high level analysis of workflow efficiency, suggest ways to improve performance, implement/re-implement tools to leverage Big Data technologies such as those based on Hadoop
- At minimum, completion of a Bachelor’s degree in Bioinformatics, Computer Science or Engineering or recognized equivalent required
- At minimum over 1 year up to and including 2 years practical and related experience
- Have strong opinions about robust, reusable, and maintainable bioinformatics software
- Strong expertise in Java, Perl, or Python and associated open source, bioinformatics libraries
- Strong experience with bioinformatics tools, focused on those used in sequence analysis
- Familiarity with modern sequencing technologies based on platforms like the Illumina HiSeq
- Experience with software build tools (Ant, Maven), source control (git), and CI (jenkins)
- Experience with software profiling and benchmarking tools
- Desire to work on a large, international scientific project
- Desire to work in a dynamic scientific environment and move cancer research forward
OICR is an innovative cancer research institute located in the MaRS Centre in the Discovery District in downtown Toronto. OICR is addressing significant challenges in cancer research with multi-disciplinary, multi-institutional teams. New discoveries to prevent, detect and treat cancer will be moved from the bench to practical applications in patients. The OICR team is growing quickly. We are innovative, dedicated professionals who bring expertise to each of our roles. We are looking for individuals interested in being part of a culture of excellence that will result in Ontario being recognized internationally as a leading jurisdiction for cancer research.
Launched in December 2005, OICR is an independent institute funded by the Government of Ontario through the Ministry of Research and Innovation.
For more information about OICR, please visit the website at www.oicr.on.ca.
POSTED DATE: July 15, 2014
CLOSING DATE: Posted until filled
OICR has a diverse workforce and is an equal opportunity employer.
The Ontario Institute for Cancer Research thanks all applicants. However, only those under consideration will be contacted.
Resume Format: If you elect to apply, you will need a text or HTML version of your resume so that you can cut and paste it into the application box provided. Before you submit the completed application, you will be asked to attach one or two files to your application. Please attach your resume as a .doc file.