Welcome page Returning Candidate? Log back in! Computational Biologist 2 or 3 Job Locations US-OR-Portland Requisition ID 2024-30303 Position Category Research Position Type Regular Full-Time Job Type Research Department CEDAR - Knight Cancer Institute FTE 1.00 Schedule Monday - Friday Hours 8:30am to 5:00pm and occasional nights and weekends HR Mission School of Medicine Drug Testable No Department Overview

The Knight Cancer Institute (KCI) Center for Biomedical Data Science (CBDS) at Oregon Health & Science University seeks an experienced Computational Biologist Level 2-3 to support our Collaborative Nursery

Projects. The Collaborative Nursery is a new program designed to foster collaboration between CBDS faculty and other KCI investigators. The successful candidate must be prepared to work independently at all levels of data evaluation, curation, harmonization and analysis. The analyst will work closely and in person with both the computational and biology teams, and is expected to develop a strong working understanding of the biologic questions driving the research. The ability to be flexible and adapt to changing circumstances is essential for success in this role. This position will enjoy unique exposure and access to data relevant to cancer biology, detection, interception, and therapy. Data types may include multi-omic, genomic, transcriptomic, proteomic, imaging, and/or clinical

data. Duties will include requirements gathering, data management, pipeline building and execution, shared tool development, custom analysis with data modeling, machine learning, and contributions to manuscripts and grant applications.

 

Overview: The Knight Cancer Institute, known as one of the pioneers in personalized cancer medicine, is an international leader in research and cancer treatment. The Center for Biomedical Data Science (CBDS) has been created jointly with the University of Oregon to leverage the massive amounts of biomedical data that is being generated by advanced technologies. At CBDS, our mission is to harness large-scale, high dimensional data and develop informatics tools and computational approaches to enable the discovery of next-generation treatments and therapies and the advancement of cancer detection, interception and population science. This is an ambitious goal, one that requires novelty, creativity, and innovation. CBDS tackles this goal by working across a

variety of departments and units in basic, translational and clinical research at OHSU. Faculty and staff at CBDS have advanced training in machine learning and quantitative analysis of biomedical data, extensive platform development experience, and a track record of innovation in biomedical applications.

 

Our Commitment to Diversity: OHSU is committed to increasing the diversity of the campus community. We are dedicated to promoting inclusion and multiculturalism by having outstanding researchers of diverse backgrounds work together. We encourage extensive collaboration among researchers with diverse viewpoints and expertise because defeating cancer requires out-of-the-box thinking and new perspectives.

 

Every Knight Cancer employee is expected to embody our guiding principles:

We act BOLDLY—Breakthroughs require pushing the boundaries of science, exploring new frontiers, and thinking differentlyWe SUPPORT each other—Respect leads to trust, which leads to excellenceWe work as a CONNECTED team—We must leverage our collective brain power to conquer cancer because no one individual can do it alone Function/Duties of Position

Data Organization and Management

Clean and manage metadataAccess, store, and document raw dataCoordinate with project team members Meet publication requirements, including data and code repositing 

3 Data Analysis

Sample/data quality control assessmentImplement existing analytic packages and workflowsAdapt existing resources and tools, as needed, to meet project needsDevelop novel analyses and visualizations 

4 Technical Writing/Communication

Present at regular team meetingsClear code documentationSupport manuscript preparationSupport grant writing efforts 

5 Computation Infrastructure Support

Develop novel software tools or analytical pipelinesCreate or adapt data models/schemas for data managementProvide technical support to other team members and participate in code reviewsAssist in cross -platform and -tool integration Required Qualifications

Education:

PhD in Computational Biology or related field OR Master's Degree in Computational Biology, Bioinformatics, or related field AND 6 years relevant experience OR Equivalent combination of Bachelor’s in a relevant field in conjunction with training and experience may be considered.Candidates with fewer years’ experience than listed above per academic degree may be considered for a Computational Biologist Level 2 position

Experience:

Significant experience with analysis of ‘omic or imaging data (genomic, transcriptomic, proteomic, medical imaging etc.)Experience in implementing statistical methods as appropriate for dataset treatment (e.g. quality inspection, normalization, differential feature detection, etc.)

Job Related Knowledge, Skills and Abilities (Competencies):

High-level competency in an appropriate programming language (R or Python), preferably in Unix/Linux An understanding of statistical methods for data treatmentUsage of structured engineering methods for specifying, designing, and implementing systems and pipelines in high performance computing environmentsAbility to effectively manage multiple projectsExcellent written and verbal communication, analytical and organizational skills

Compliance:

Code of conductRespect in the workplaceApplicable policies, procedures and agreements related to position, department or OHSU as a whole Preferred Qualifications

Experience:

Experience with machine learning Experience with high performance computing environmentsExperience developing pipelines to support analytics as described, to facilitate improved data management, and to generate complete workflows that are reproducible and scalable

Job Related Knowledge, Skills and Abilities (Competencies):

Experience with version control in codingExperience using containers or package/environment management tools, such as Conda or DockerExperience with systems or tools for managing ‘omics or imaging data Experience with scientific and computation mentorship Additional Details

We offer a variety of benefits on top of joining a thriving organization:

Medical, dental and vision coverage at no or low cost to employeesCovered 100% for full-time employees and 88% for dependentsSeveral retirement plans to choose from with contributions from OHSU25 days a year of paid time off8 days of sick time off Commuter subsidiesTuition reimbursementAccess to group life insurance, disability insurance and other supplemental benefitsAnnual Merit IncreaseGrowth/Development OpportunitiesEmployee discounts to local and major businesses

 

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All are welcome Oregon Health & Science University values a diverse and culturally competent workforce. We are proud of our commitment to being an equal opportunity, affirmative action organization that does not discriminate against applicants on the basis of any protected class status, including disability status and protected veteran status. Individuals with diverse backgrounds and those who promote diversity and a culture of inclusion are encouraged to apply. To request reasonable accommodation contact the Affirmative Action and Equal Opportunity Department at 503-494-5148 or aaeo@ohsu.edu.