Oregon Health & Science University

Assistant Staff Scientist

Job Locations US-OR-Portland
Requisition ID
Position Category
Position Type
Regular Full-Time
Job Type
Division of Oncological Sciences - Knight Cancer Institute
Salary Range
Range minimum: $58,939/year. Starting salary will be determined based on education, experience, and internal equity at the time of offer
Monday through Friday
8:30am to 5:00pm plus occasional nights and weekends
HR Mission
School of Medicine
Drug Testable

Department Overview

As an Associate Scientist, you will support cutting-edge mass spectrometry-focused functional proteomics research at Prof. Andrew Emili’s Collaboratory for Network Systems Biology (CNSB), part of the Knight Cancer Institute at Oregon Health and Science University. Major new project initiatives involve interrogation of primary patient specimens, tissue specimens from animal models of disease, and engineered cell culture systems, to characterize the macromolecules and biological pathways altered in disease states, as well as the mechanisms of action of bioactive compounds.


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

Function/Duties of Position

The primary role for the candidate will be to support serve as the principal proteomic mass spectrometry support expert for the group.  This role will involve the operation, maintenance and support of high-performance LC/MS instrumentation, and participation as lead scientist on select projects throughout their lifespan including providing significant input on experimental study design, control inclusion and placement, data acquisition strategies and, critically, the analysis, mining and interpretation of datasets. 


Additional and important roles for the candidate will involve providing support in sample preparation, method development, instrument optimization, and organized tracking of instrument use, samples, datasets, methods (both experimental and analytic) over collective studies.  The candidate will be required to explore and apply new MS proteomic capabilities as they emerge, and will need to scale analytic platforms and algorithms for highly scaled collaborative studies. 


The candidate will demonstrate the ability to independently design, execute and interpret proteomic method development studies critical to the evolution of our workflows to support advanced sample interrogation. The candidate should be inquisitive and highly motivated, and be able to operate effectively with internal team members and actively solicit input from expert external analytic consultants and collaborators.  The candidate will on occasion oversee more junior analysts and experimental researchers and train them on appropriate methods and approaches to build wider team expertise. 


Duties Include but are not limited to:

  • Mass spectrometry/Proteomic data generation and analysis – Act as principal mass spectrometry facility director for the Emili Group/CNSB to ensure high quality data acquisition. 
  • Sample preparation and methods implementation for Mass Spectrometry (MS) analysis – Responsible for SOP development and updating to keep proteomic workflows consistent across the team with new developments and advancing standards.
  • Operation, maintenance, and troubleshooting of our Orbitrap/Exploris 480 mass spectrometry platform and associated instrumentation.
  • Monitoring quality control metrics for various instruments and processes.

Required Qualifications

  • Doctoral degree in relevant field and 3+ years of relevant post-doctoral work experience
  • >3 years, proteomics/analytical chemistry or closely related discipline
  • Exceptional self –starter
  • Computational skill with latest versions of proteomic software such as MaxQuant.  Experience with biochemical methods for processing and quality control analysis of proteins and peptides for analytic endpoints, especially mass spectrometry
  • An understanding of, and ideally previous experience with, shotgun mode mass spectrometry analysis of protein/peptide mixtures
  • 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
  • Intermediate skills with Microsoft Office (Excel, Outlook, Access, Word, and PowerPoint), statistical tools and programing languages

Preferred Qualifications

  • >5 years, proteomics/analytical chemistry or closely related discipline
  • Experience in implementing global quantitative proteomic methods, such as isotope labeling, on Orbitrap MS instruments
  • Experience in using high/medium pressure (nanoflow) liquid chromatography for sample preparation and for inline sample delivery to nanospray MS sources
  • Skill in chemical labeling and crosslinking of protein and peptide samples for MS analysis

Additional Details

Apply online. Please be sure to upload a Cover Letter and Resume/CV.

Effective Oct. 18, 2021, all OHSU employees were required to be fully vaccinated against COVID-19 unless they had an approved medical or religious exception. If you are hired by OHSU, you will need to provide proof of vaccination (or approved exception) within 10 days of starting work.


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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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