Oregon Health & Science University

Computational Biologist 2

Job Locations US-OR-Portland
Requisition ID
2022-19460
Position Category
Research
Position Type
Regular Full-Time
Job Type
Research
Department
Knight Cancer Institute, Immune Monitoring and Therapeutic Analytics
Salary Range
$70-90k Annual; Salary Commensurate with Experience
FTE
1.00
Schedule
Monday-Friday, occasional nights and weekends
Hours
8 am-4:30 pm (Remote work 2-3 days a week - Hybrid)
HR Mission
School of Medicine
Drug Testable
No

Department Overview

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.

Function/Duties of Position

The Knight Diagnostic Laboratories specialize in designing, validating, and delivering cutting edge assays for oncology that are CLIA certified and CAP accredited. The Immune Monitoring and Cancer Omics Labs (IMCO) is a research arm of KDL focused on development and GLP-like implementation of translational research assays.  Our large, ever-expanding menu of diagnostic and research assays, directly informs the clinical care of oncology patients, (CLIA/CAP assays), contributes to translational and clinical trials-oriented research projects with academic and private sector collaborators. 

 

This position is a member of the Immune Monitoring and Cancer Omics Services (IMCO) analytics team and will report to the director of IMCO. Overall, this position will support IMCO’s data analysis needs focused on integration of clinical metadata into large cohort-level analysis of RNAseq, mIHC and proteomics data. The right candidate will work closely with mIHC and CyTOF analytics teams and wet bench scientists co-leading the development of efficient pipelines for streamlined data analysis and visualization. Working closely with exciting, highly-dimensional human data (omics, imaging, mass cytometry and seq), the ideal candidate will have advanced knowledge of statistics and cancer immunology.  Duties include teamwork, client (industry) interactions, data management, pipeline building and maintenance, statistical analysis, custom analysis with data modeling and machine learning, and standardized report building. This is a highly exciting opportunity, utilizing cutting edge assays and innovative analytics to interrogate cancer biology, precision medicine in a clinically meaningful, actionable way. 

 

Duties will include:

 

1. 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

2. Data Management: Assists in development and implementation of data management tools, software infrastructure for improving data manipulation process and output with the goal of synergizing and streamlining all analytic and clinical data. 

 

3. Workflows: Leads the development of automated data analysis workflows for all datasets. Investigates published approaches, adopts/enhances approaches as needed, and works with software developers to implement complete workflows that are reproducible and scalable.

 

4. Tools: Uses best practice software development, data analysis and biostatistics approaches to implement analysis and visualization tools for all assays and datasets. Is responsible for developing, validating, and documenting the tools developed.

 

5. Report generation and Custom Analysis: Is responsible for custom analyses that arise from omics, imaging and sequencing datasets generated by or for IMCO. Report generation and interaction with prospective internal and external clients to assure data generated reflects biologically relevant questions and answers hypothesis.

Required Qualifications

Education: 

  • Master's Degree in Biostatistics, Computational Biology or Data Science AND 3 years of relevant experience
  • OR Bachelor’s Degree in Biostatistics, Computational Biology or Data Science AND 6 years of relevant experience 

Experience:

  • Experience using code-based data analysis in R
  • Algorithm development to help translate research into clinically actionable insights
  • Experience with large datasets and statistical modeling
  • Proficient understanding of cancer immunology 

Job Related Knowledge, Skills and Abilities (Competencies):

  • Advanced skills in a high- level programming language - R is a must
  • Understanding of high throughput biological data (human) and biostatistics
  • Experience with data visualization in R (R- ggplot, plotly, Rshiny; Python- Bokeh, Seaborn, dashboard, markdown)
  • Knowledge of Linux or Unix commend line and high- performance computing
  • An understanding of machine learning, data modeling or statistical techniques, such as mixed-model regression, principal component analysis, classifier construction and validation, biomarker discovery and optimization methods
  • Demonstrated excellence in translational research (immunology, cancer biology, flow, imaging, single cell assays)
  • 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

Preferred Qualifications

Education: 

  • Ph.D. in biostatistics, computational biology or data science. 

Experience: 

  • 4+ years of work experience as a data analyst, bioinformatics scientist or biostatistics
  • Two years team science experience in a collaborative translational environment
  • One year of hands-on experience with analysis of RNAseq, omics or scRNAseq. Running analysis on high computing clusters 

Job Related Knowledge, Skills and Abilities (Competencies):

  • Knowledge of dashboard building
  • Hands on, real-life experience with data analysis and report generating
  • Excellent knowledge or parametric and non-parametric statistical tests and data normalization strategies 

Additional Details

Please submit a resume and cover letter for your application to be considered. 

 

Please note: As of Oct. 18, 2021, all OHSU employees are required to be fully vaccinated against COVID-19. Fully vaccinated means you have received both doses of a two-dose, or one dose of a single-dose, FDA- or WHO-authorized COVID-19 vaccine and at least 14 days have passed since your final dose of COVID-19 vaccine. If you apply for and are offered a position, you must be fully vaccinated prior to starting work.

 

If the position you are offered does not require direct, in-person patient care contact, you may request an exception to the vaccine policy for medical or religious reasons. OHSU uses very narrow criteria under the law to allow an exception and very few requests are being approved.

 

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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.


As an organization devoted to the health and well-being of people in Oregon and beyond, OHSU requires its employees to be fully vaccinated against COVID-19.

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