Computational Biologist 2 or 3
Computational Biologist 2 or 3
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1 Vacancy
Job Description
Department Overview
The Knight Cancer Institute (KCI) Center for Biomedical Data Science (CBDS) at Oregon Health & Science University seeks an experienced Computational Biologist Level 23 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 multiomic genomic transcriptomic proteomic imaging and/or clinical
data. Duties will include requirements gathering data management pipeline building and 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 largescale high dimensional data and develop informatics tools and computational approaches to enable the discovery of nextgeneration 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 outofthebox thinking and new perspectives.
Every Knight Cancer employee is expected to embody our guiding principles:
- We act BOLDLYBreakthroughs require pushing the boundaries of science exploring new frontiers and thinking differently
- We SUPPORT each otherRespect leads to trust which leads to excellence
- We work as a CONNECTED teamWe 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 metadata
- Access store and document raw data
- Coordinate with project team members
- Meet publication requirements including data and code repositing
3 Data Analysis
- Sample/data quality control assessment
- Implement existing analytic packages and workflows
- Adapt existing resources and tools as needed to meet project needs
- Develop novel analyses and visualizations
4 Technical Writing/Communication
- Present at regular team meetings
- Clear code documentation
- Support manuscript preparation
- Support grant writing efforts
5 Computation Infrastructure Support
- Develop novel software tools or analytical pipelines
- Create or adapt data models/schemas for data management
- Provide technical support to other team members and participate in code reviews
- Assist in cross platform and tool integration
Required Qualifications
Education:
- PhD in Computational Biology or related field OR
- Masters Degree in Computational Biology Bioinformatics or related field AND 6 years relevant experience OR
- Equivalent combination of Bachelors 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):
- Highlevel competency in an appropriate programming language (R or Python) preferably in Unix/Linux
- An understanding of statistical methods for data treatment
- Usage of structured engineering methods for specifying designing and implementing systems and pipelines in high performance computing environments
- Ability to effectively manage multiple projects
- Excellent written and verbal communication analytical and organizational skills
Compliance:
- Code of conduct
- Respect in the workplace
- Applicable 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 environments
- Experience 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 coding
- Experience using containers or package/environment management tools such as Conda or Docker
- Experience 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 employees
- Covered 100 for fulltime employees and 88 for dependents
- Several retirement plans to choose from with contributions from OHSU
- 25 days a year of paid time off
- 8 days of sick time off
- Commuter subsidies
- Tuition reimbursement
- Access to group life insurance disability insurance and other supplemental benefits
- Annual Merit Increase
- Growth/Development Opportunities
- Employee discounts to local and major businesses
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All are welcome
Employment Type
Full-Time
