Position title: Production Bioinformatician
Employer: Garvan Institute of Medical Research
Closing date: 15/3/2021
Brief position description: The Garvan Institute of Medical Research brings together world-leading basic and translational researchers with expert clinicians to break down barriers between traditional scientific disciplines and find solutions to disease. Founded in 1963, Garvan’s mission is to harness all the information encoded in our genome to better diagnose, treat, predict and prevent disease.
Our scientists work across four intersecting research themes: medical genomics, epigenetics, and cellular genomics; diseases of immunity and inflammation; cancer; and diseases of ageing affecting bone, brain and metabolism. And three major Centres: the Kinghorn Centre for Clinical Genomics, the Garvan-Weizmann Centre for Cellular Genomics, and the Centre for Population Genomics.
This position will be collaborating with both the Kinghorn Centre for Clinical Genomics (KCCG) and the Garvan-Weizmann Centre for Cellular Genomics (GWCCG)
The Opportunity
The Production Bioinformatician will oversee the development, implementation and support of software and computational pipelines to translate raw single cell sequence data through to researchers. In addition, the production bioinformatician will deploy and support tools to assist researchers and clinicians with their genomic research.
The role will focus on supporting robust and production scale pipelines that run on either local or national HPC systems, as well as cloud services.
This is a unique opportunity for a bioinformatician to get exposure to research in single cell transcriptomics, genomics and epigenetics. This is a one-year full-time, fixed term role with a high possibility to extend, reporting to Joseph Copty - Bioinformatics Lead (KCCG Sequencing lab) and working closely with the GWCCG team. There is remote working flexibility with an option to choose your own days of work on site.
Key Responsibilities
Develop, implement and maintain the computational infrastructures required to support the analysis of high-throughput genome and single cell sequencing data.
Support the translation of new computational techniques from a research setting to production scale tools.
Design and implement pipelines to run on the internal and external high performance compute infrastructure and commercial clouds (AWS, GCP, Azure).
Deploy and support research tools for genomic variant filtration and interpretation.
Contribute code and features to open source bioinformatics tools.
Assist collaborators in data analysis and to check the validity of experimental results.
Create computational solutions to generate automated reports from raw high-throughput sequence data
Establish and maintain excellent records of the computational analysis and techniques for all projects in KCCG and GWCCG
About You
In order to be successful in this position, you will demonstrate the following key skills and attributes:
Bachelor degree (or higher) in Bioinformatics, Computer Science or related fields
Expertise in computational bioinformatics techniques, with a special focus on single cell transcriptomics, genomics and epigenetics
Demonstrated experience in the development and implementation of new and cutting-edge bioinformatics tools and pipelines using workflow languages
Strong skills in Linux command line and scripting languages (Python, Bash, R or other)
Experience with source code management tools (git preferred)
Experience in cloud infrastructure
Experience in using high performance computers (HPC) and job schedulers (e.g. PBS pro, SGE).
Demonstrated experience in containerisation using Docker and/or Singularity
Demonstrated experience in the development and implementation of new and cutting-edge bioinformatics tools and pipelines using workflow languages
Demonstrate experience in SQL and NoSQL based Databases
Desirable
Demonstrated experience in containerisation using Docker and/or Singularity
Knowledge of web frameworks: Django, Flask etc. is a plus
Experience with laboratory information management systems (LIMS)
Excellent written and oral communication, representation and interpersonal skills essential for interaction with internal and external stakeholders, including KCCG and GWCCG leaders
Excellent problem solving abilities and strong attention to detail
Ability to work independently
How to Apply
Only applicants with full work rights can apply. We are actively looking to hire for this role preferably by this month, so candidates are encouraged to submit their application along with a cover letter attached with the CV as one document, as soon as possible. If you think you’re the right person for this role, don’t delay as we’re assessing applications as they are received. We’d love to hear how your capabilities, achievements and experience set you apart.
Job website: https://garvan.wd3.myworkdayjobs.com/en-US/garvan_institute/job/Sydney/Production-Bioinformaticiann_PRF5816
Contact name: Michelle Earle
Contact email: m.earle@garvan.org.au