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Principal Engineer I, MSAT

Ultragenyx Pharmaceutical Inc.

Ultragenyx Pharmaceutical Inc.

Bedford, MA, USA
USD 169,200-209k / year + Equity
Posted on Sep 18, 2025
Why Join Us?
Be a hero for our rare disease patients
At Ultragenyx, we fundamentally believe that taking real impactful action to care for the needs of patients and our people is always the right thing to do. To achieve this goal, our vision is to lead the future of rare disease medicine. For us, this means going where other biopharma companies won’t go – challenging the status quo and creating a new model that advances our field so more patients and caregivers can benefit from life-changing treatments. We do this by following the science, applying a novel rapid development approach, making innovative medicines at fair and reasonable prices, and creating a collaborative ecosystem to reach patients in ways that are most meaningful for them.
Our commitment and care for patients extends to our people, so culture is an essential cornerstone for Ultragenyx. We remain continuously focused on creating a supportive and inclusive environment of profound learning and growth – so employees can thrive in all areas of their lives, in and outside of work. Ultimately, we want to be an organization where we would be proud for our family, friends and children to work.
If you want to have a meaningful impact, do the best work of your career, and grow a lot, both professionally and personally, come join our team.

Position Summary:

ultrafocused – Work together to fearlessly uncover new possibilities

The Principal Engineer I in MSAT will provide technical leadership to support both early- and late-stage AAV GMP manufacturing at internal and contract gene therapy facilities. Reporting to the Sr. Director of MSAT, this role will focus on developing data management solutions to enable monitoring the ongoing GMP production and drive process improvements for future lifecycle management. The ideal candidate will bring a strong foundation in biologics/AAV process knowledge combined with statistical expertise. Success in this role requires a high degree of professionalism, cross-functional collaboration, and an innovative mindset.

Work Model:

Core Lab & Ops: This role typically requires that the majority of the work be conducted on-site.

Responsibilities:

  • Build and implement the Continued Process Verification (CPV) framework for AAV programs, including online/offline data management solutions, data integrity verification process, statistical tools and predictive models to monitor and improve batch performance.
  • Establish and oversee systems for data collection, monitoring, and analysis systems for early and late-stage programs, ensuring compliance with 21 CFR Part 11 and alignment with regulatory expectations.
  • Develop and apply advanced statistical data modeling approaches (e.g., multivariate analysis, regression, machine learning techniques) to enable predictive modeling, deviation investigations and continuous improvement.
  • Support deviation investigations and tech transfer activities by leveraging statistical expertise to analyze historical data, and to set or revise in-process control limits.
  • Lead initiatives to develop platform process models (HEK vs. HeLa) across multiple GMP manufacturing sites to support proactive process monitoring; stay current with the AAV manufacturing technology innovations, and support implementation of process improvements for life cycle management.
  • Collaborate with Global CMC Development, external CDMOs, Manufacturing, Quality Assurance, Quality Control, and other stakeholders to enable robust CPV strategy execution.
  • Contribute to regulatory filings by authoring CPV-related content, responding to agency inquiries, and authoring sections of briefing books and submissions.
  • Author and maintain technical documentation, including CPV protocols and reports, statistical models, SOPs for data management, and lifecycle management protocols and reports.

Requirements:

  • Master’s degree in Virology, Molecular Biology, Genetics, Biochemistry, Chemical Engineering, Bioinformatics, Biostatistics or an equivalent discipline preferred
  • 5+ years in biopharma industry. Biologics, Gene / Cell therapy experience preferred
  • Understanding of biologics/AAV manufacturing process is required and experience in manufacturing technical support, process development, and/or MSAT roles is preferred
  • Demonstrated experience in data management, process modeling, and predictive analytics, preferred with GMP environment
  • Proficiency in biostatistics and data management tools (e.g., DOE, multivariate analysis, regression, Python/R/SAS).
  • Experience with regulatory filing is a plus
  • Proven ability to deliver results successfully, collaborating with multi-cultural and geographically diverse teams
  • Demonstrated ability to work in a team and in a fast-paced environment. Proven ability to independently manage multiple competing priorities, while working on multiple projects simultaneously
  • Excellent communication and presentation skills
  • May require up to 15% travel when necessary. #LI-CK1 #LI-Onsite

The typical annual salary range for this full-time position is listed below. This range reflects the characteristics of the job, such as required skills and qualifications and is based on the office location noted in this job posting. The range may also be adjusted based on applicant's geographic location.


This position is eligible for annual bonus and equity incentives. Actual individual pay is determined by demonstrated experience and internal equity alignment.

Pay Range
$169,200$209,000 USD
Full Time employees across the globe enjoy a range of benefits, including, but not limited to:
· Generous vacation time and public holidays observed by the company
· Volunteer days
· Long term incentive and Employee stock purchase plans or equivalent offerings
· Employee wellbeing benefits
· Fitness reimbursement
· Tuition sponsoring
· Professional development plans
* Benefits vary by region and country

Ultragenyx Pharmaceutical is an equal opportunity employer and prohibits unlawful discrimination based on race, color, religion, gender, sexual orientation, gender identity/expression, national origin/ancestry, age, disability, marital and veteran status, and any other status or classification protected by applicable federal, state, and/or local laws. Reasonable accommodation will be provided for all protected statuses or classifications protected by applicable law, including individuals with disabilities, disabled veterans, for pregnancy, childbirth, and related medical conditions, and based on sincerely held religious beliefs. Applicants can request an accommodation prior to accepting a job offer. If you require reasonable accommodation in completing this application, or in any part of the recruitment process, you may contact Talent Acquisition by emailing us at talentacquisition@ultragenyx.com.

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It is unlawful in Massachusetts to require or administer a lie detector test as a condition of employment or continued employment. An employer who violates this law shall be subject to criminal penalties and civil liability.

Note to External Recruiters: All candidate activity and open positions are managed strictly through our Human Resources Department. Our Human Resources Department kindly requests that recruiters not contact employees/hiring managers directly in an attempt to solicit business and present candidates. Please note that failure to comply with this request will be a factor in determining a professional relationship with our organization. Submission of unsolicited resumes prior to an agreement set in place between the Human Resources Department and the recruiting agency will not create any implied obligation. Inquiries on developing a recruiting relationship with us, may be directed to: talentacquisition@ultragenyx.com.