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BACKGROUND

OHSU is ranked as one of the nation's top biomedical institutions in patient care, research, and education, with an annual operating budget of over $2.3 billion, over $340 million in annual grant funding, over 4,000 students and trainees, and nearly 1 million patient visits per year. Multiple departments rank among the top 5 in annual grant funding, including neuroscience, microbiology, ophthalmology, otolaryngology, and emergency medicine. OHSU is one of the nation's fastest growing biomedical institutions, bolstered by long-term resource commitments, such as the $1 billion Phil and Penny Knight "challenge" to support research in OHSU's Knight Cancer Institute, led by Dr. Brian Druker, who pioneered the concept of gene targeted therapy by demonstrating the efficacy of the revolutionary cancer drug Gleevec in chronic myelogenous leukemia. OHSU provides substantial resources to enable data intensive science, including a world-class exascale supercomputing cluster, close interactions and resource commitments by leading technology companies such as Intel, tight integration with clinical and basic research programs across campus, graduate training programs in quantitative biosciences, biostatistics, biomedical informatics, bioinformatics and computational biology, and substantial long-term resource commitments, including the $1 billion Phil and Penny Knight "challenge" to support cancer research, with a significant focus on computation. The Computational Biology Program at Oregon Health and Science University (OHSU), Portland, OR is committed to leading the development of next-generation patient care through discoveries made by big data analytics, enabled by values of open access data, open source code, highly collaborative team science, and professional software engineering methodologies.

RESPONSIBILITIES

We are seeking a skilled scientific programmer to develop genomic, imaging, and clinical analysis applications on a distributed data / workflow management and analytics platform currently under development. This position will work in a team oriented software development environment, following best practices such as code sharing through GitHub and development of structured software APIs. A successful candidate will contribute to the international development of standardized APIs and data schemas, and develop implementations compatible with such APIs, ensuring that the system is interoperable within the emerging community ecosystem of software tools.

Develop custom analytics and data management applications to facilitate one or more of the following: large-scale genomic data analysis; machine learning methods to infer genotype-to-phenotype predictive models; analysis of quantitative imaging data.
Work with the platform development team to implement scalable cloud-enabled workflows to disseminate analytical advances to the research community.
Establish and maintain standards for structured software & systems engineering, including requirements, design, code, test, quality, configuration & release management and project management.
Provide documentation and user support allowing computational researchers across campus to access and re-use analysis tools.
Maintain well-curated, highly structured, transparent omics, imaging, or clinical data resources.
Develop tools to integrate commonly used open source bioinformatics software applications.
Participate in leading international efforts aimed at establishing best practices and standards for genomic data representation and analysis.

REQUIREMENTS

Advanced skills in a high level programming language, preferably Python, R, or Java
Experience in one of the following:
- Analyzing next-generation DNA or RNA sequencing data
- Advanced machine learning or statistical techniques, such as probabilistic graphical models, Bayesian inference, and optimization methods
- Image processing algorithms and biomedical image analysis workflows
Experience using structured engineering methods for specifying, designing, and implementing systems
Experience with architecture and tools for managing "omics" or imaging data
Ability to prioritize multiple tasks at one time
Excellent communication, analytical and organizational skills, both written and verbal
Ability to work independently and as part of a team while being collaborative in resolving problems
A desire to change the world and contribute to the elimination of human disease

TERMS

Full-Time

LOCALE

Portland, Oregon

COMPENSATION

We offer highly competitive recruitment packages, comprehensive benefits, and a rewarding work and life environment. OHSU is located in Portland, Oregon – a city whose breathtaking scenery, exciting location, mild weather, and friendly people have all contributed to its appearance on numerous "Best Of" lists, including Online Insider's "Top 10 Least Expensive Cities", Money Magazine's "Top 10 Places to Vacation" and "Top 10 Best Places to Live", and American Style Magazine's "Top 25 Arts Destinations".

HOW TO APPLY

Please visit http://www.ohsu.edu/xd/about/services/human-resources/

Reference: IRC46014

Review of applications will begin immediately, and will remain open until positions are filled. All applications will be reviewed for multiple open computational biology positions at OHSU, as announced in several job postings. Applications should include a CV and cover letter. We encourage including the following in the cover letter: Please indicate if you have seen any other job postings at OHSU that you would like to be considered for. It is not necessary to apply multiple times. Provide links to open source code (e.g. through GitHub or other code repository) that you are most proud of and describe the relevance to advancing one of the research areas. Describe in 1 or more paragraphs how your personal philosophy or career goals relate to the values of team-oriented science, with examples of how you have embodied these values in your career.

POLICY

OHSU is an equal opportunity, affirmative action institution. All qualified applicants will receive consideration for employment and will not be discriminated against on the basis of disability or protected veteran status. Applicants with disabilities can request reasonable accommodation by contacting the Affirmative Action and Equal Opportunity Department at 503-494-5148.

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