SENIOR SOFTWARE DEVELOPER, INFECTIOUS DISEASE SURVEILLANCE
|Department:||GENOME SCIENCES: BROTMAN BATY INSTITUTE|
|Job Location:||Health Sciences Center|
|Closing Info:||Open Until Filled|
Salary and benefits are competitive. Salary is commensurate with qualifications and experience.
|Notes:||This recruitment may be used to fill up to 2 openings.|
UW faculty and staff also enjoy outstanding benefits, professional growth opportunities and unique resources in an environment noted for diversity, intellectual excitement, artistic pursuits and natural beauty. All of which has allowed the UW to be nationally recognized as a “Great College to Work For” for six consecutive years.
The Department of Genome Sciences (GS) is part of the University of Washington School of Medicine and is comprised of 26 labs addressing leading edge questions in biology and medicine by developing and applying genetic, genomic and computational approaches taking advantage of genomic information now available for a host of species. GS is making major contributions in the application of genome science to understand the fundamentals of biology and to improve human health and wellbeing. Genome Sciences is a collaborative department supported by very different academic disciplines. We work with a multitude of Program Investigators (PIs) in departments both on the UW campus as well as worldwide. The department has gone through significant expansion since its beginning in 2001 with annual grant awards of $56M for FY19. The department has 47 training, teaching, and research faculty.
Positions for up to two Senior Software Developer(s) are available immediately at the Brotman-Baty Institute (BBI) to work on an open-source research platform enabling a large-scale study of respiratory illness in Seattle.
The Brotman Baty Institute for Precision Medicine (BBI) is a recently launched, joint venture of the University of Washington, the Fred Hutchinson Cancer Research Center and Seattle Children’s Hospital, made possible by a $50 million gift from the Brotman and Baty Families. The Brotman Baty Institute offers a dynamic work environment with cutting-edge science and computational resources.
The project, named the Seattle Flu Study (SFS), is a collaboration of groups at BBI, Fred Hutch, the University of Washington, and Seattle Children's. Already in its second year, this multi-year study has produced high-resolution analyses of the spread of influenza and other respiratory illnesses in Seattle. In year one of the study, the SFS sampled and sequenced thousands of influenza and other respiratory pathogens in near-real time, and, from these viral genome sequences, uncovered influenza transmission dynamics.
Duties & Responsibilities:
• The primary task of these new positions will be to develop the information and analysis systems underlying the SFS’s research aims, with potential expansion to new studies around the world in the future. The existing software platform used in the study ingests subject and sample metadata, lab assay results, and raw and processed genome data. It also provides access to this curated data for downstream analysis. The platform is open-source, adaptable, and designed with future infectious disease outbreak surveillance in mind, regardless of the targeted pathogen. (75%)
• This position will also collaborate with the Bedford lab at Fred Hutch to co-develop Seattle Flu Study adaptations for Nextstrain to deploy analytic pipelines that align sequences, build phylogenies, reconstruct city-scale transmission chains, and manage database queries and dashboards. (25%)
Within those two major aims, more specific job duties include:
• Product development: Interfacing with faculty, outside project collaborators, staff, and student employees both in-person and online, learning software requirements, collaborating on design, communicating updates regarding job build, specs, and all job duties listed above. Guiding junior staff and student employees on related programming and software engineering topics.
• Budgeting: responsibility for managing the budget for the software development arm of the infectious disease surveillance portion of the project, including hardware or software purchases, contracts for cloud computing, consultants, etc., as well as developing budgets for any future grants funds or additional funding requests on existing project.
• Communications: As requested, occasional presentation of software tool’s capabilities to UW leadership, donors, and public health officials, including dashboard, and near-real time map of the spread of infectious diseases, and adaptation or evolution of pathogens over time – to aid in shaping UW Medicine’s and other agencies’ response to public health emergencies.
Teaching: When situation permits, serve as an invited guest lecturer in software development or genome sciences courses on the software development behind an emerging global pathogenic threat. Lessons learned, and how to prepare for the future. Navigating real-time adaptations, information sources, and the politics of information gathering and dissemination, as well as translational barriers and successes to effective implementation of data presented.
• Bachelor's degree in computer science, engineering or other field.
• Minimum five years related experience required, whether in an academic or professional setting.
• Candidates should have outstanding academic and professional track record.
• Successful candidates will be highly self-motivated and enthusiastic about taking a hands-on approach to collaborative scientific discovery efforts.
• Candidates should also have excellent written and verbal communication skills. Interfacing with project collaborators in-person and online is a key aspect of both positions. Both positions will work within a small team and collaborate with the Bedford lab.
Equivalent education/experience will substitute for all minimum qualifications except when there are legal requirements, such as a license/certification/registration.
The Brotman Baty Institute is committed to improving diversity in the computational sciences. Applicants of diverse backgrounds are particularly encouraged to apply. If you think you might be a great fit for this position but are concerned about meeting all requirements, we'd like to hear from you anyway. Feel free to contact us at email@example.com.
• The ideal candidate for the Software Developer positions would have expertise in web development, relational database systems, cloud infrastructure, and software engineering best practices.
• Additional education and/or experience in biology, bioinformatics or genomics.
• Experience working with genomic data or in systems integration is a plus but not a requirement.
As a UW employee, you will enjoy generous benefits and work/life programs. For a complete description of our benefits for this position, please visit our website, click here.
The application process for UW positions may include completion of a variety of online assessments to obtain additional information that will be used in the evaluation process. These may include Work Authorization, Cover Letter and/or others. Any assessments that you need to complete will appear on your screen as soon as you select “Apply to this position”. Once you begin an assessment, it must be completed at that time; if you do not complete the assessment, you will be prompted to do so the next time you access your “My Jobs” page. If you select to take it later, it will appear on your "My Jobs" page to take when you are ready. Please note that your application will not be reviewed, and you will not be considered for this position until all required assessments have been completed.