Organisation Name: Oregon Health & Science University
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The OHSU Knight Cancer Institute, known as one of the pioneers in personalized cancer medicine, is an international leader in research and cancer treatment. Driven by its mission to end cancer as we know it, the institute is building upon its expertise in targeted treatments to advance the early detection of cancer when the disease is most treatable. With decades of academic laboratory experience in pathology and genetics, the Knight Diagnostic Laboratories deliver advanced diagnostic testing to make personalized medicine a reality. Specializing in oncology, rare genetic disorders, and infectious disease, the laboratories are CLIA certified and CAP accredited. Our Medical Directors and seasoned technical staff have many years of experience in clinical testing and test development and are dedicated to providing the best quality service for physicians and their patients. Through our close partnership with the Knight BioLibrary and Histopathology Shared Resource Laboratories, research investigators can gain access to human biological specimens, histology, and immunohistochemistry services. This position provides clinical bioinformatics expertise to the Knight Diagnostic Labs at OHSU. Computational biologists support investigators in the development of clinical analysis methods that contribute to OHSU’s mission to improve human health, building and leveraging platform-based tools and biological understanding while working in a team-oriented data processing, data analysis, and software development environment, working with next-generation sequencing data, following best practices such as literature currency, tool benchmarking and code sharing through GitHub. Duties include teamwork, client interaction, cross-core collaboration, code and data management, maintenance and development of tools and pipelines, and support of investigators’ discoveries and scholarly work. Function/Duties of Position 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 differently We SUPPORT each other—Respect leads to trust, which leads to excellence We work as a CONNECTED team — We must leverage our collective brain power to conquer cancer because no one individual can do it alone Duties Include: Collaboration: Work with team members to build and maintain common code repository, bioinformatic best practices and team engagement. Work with investigators to understand and clarify requests, document requirements, communicate ongoing work, assist with interpretation of results and build community. Work with other cores to collaborate on support of investigator projects and to build and maintain shared workflows and seamless services. Data Management: Wrangle, clean, structure and store investigator data. Assist in building, populating and/or maintaining a searchable, browsable system storing raw omics and imaging data, sample metadata, data generation and data processing provenance, and custom analysis results. Pipelines: Assist platform development teams implementing scalable high-performance workflows to support the research community with analytical advances and to disseminate best practices to the computational community. Assist with documentation and user support that enable computational researchers across campus to access and re-use analysis pipelines. Tools: Assist with software development, using structured software engineering best practices. Collaborate with team members in building, publishing and re-using high-performance open-source code. Custom Analysis: Employ best practices for omics, imaging and integrative data representation and analysis. Provide processed data and technical support to biostatisticians and computational scientists, helping to identify technical factors in data generation and processing and supporting development of biological conclusions that drive the next generation of research and advance human health. Career Development: Participate in appropriate activities that enhance general knowledge of or ability to do assigned work. This includes, but is not limited to, the following: attend classes, seminars, and other training forums; stay current in relevant literature; participate in preparation of scholarly work; participate in staff meetings and other informational sessions; read vendor documentation as appropriate to position; interact with peers and other employees to receive and disseminate information. Required Qualifications Bachelors Degree (4 yr) with major courses in field of research and 1 to 3 years of relevant experience Experience as a data analyst, software developer or biological researcher, including at least 6 months in a collaborative team work environment Demonstrated ability in research related to genomic analysis, machine learning, or image analysis, which may include experience with next-gen sequencing or medical imaging Demonstrated skills in a high level programming language, preferably Python or R, preferably in Linux or Unix, optionally with Java or C/C++ Understanding of basic statistics and some of its applications to biomedical science Experience with structured data storage and with multi-component data processing systems Experience with architecture or 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 Preferred Qualifications 3 years of relevant experience, including one year of hands-on experience with generation or analysis of omics or imaging data At least 6 months of work experience in a professional, team-oriented computational biology environment High performance computing experience A passion for open-access innovation Additional Details Apply online. Please be sure to upload a Cover Letter and Resume/CV. 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.
