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Protein Engineer Jobs in Madison, WI (NOW HIRING)

Reliability Engineer 1

Waunakee, WI · On-site

$104K - $131K/yr

JOB SUMMARY Join our team at Scientific Protein Laboratories (SPL), a world leader in biosourced ... The Reliability Engineer must communicate effectively as it partners with Maintenance, Operations ...

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Protein Engineer information

See Madison, WI salary details

$23.3K

$89.3K

$162.1K

How much do protein engineer jobs pay per year?

As of Aug 26, 2026, the average yearly pay for protein engineer in Madison, WI is $89,346.00, according to ZipRecruiter salary data. Most workers in this role earn between $61,169.00 and $112,629.00 per year, depending on experience, location, and employer.

What does a protein engineer do?

A Protein Engineer designs and modifies proteins for specific functions in fields like medicine, biotechnology, and bioengineering. They use computational modeling, molecular biology techniques, and biochemical assays to improve protein stability, activity, or binding properties. Their work is crucial for developing new therapeutics, enzymes, and biomaterials for various industries.

What are the key skills and qualifications needed to thrive as a protein engineer?

To thrive as a Protein Engineer, you need expertise in molecular biology, biochemistry, and protein structure-function analysis, often supported by an advanced degree in a relevant scientific field. Familiarity with tools such as protein modeling software, high-throughput screening systems, and genetic engineering techniques is commonly required. Attention to detail, strong analytical thinking, and effective teamwork are valuable soft skills in this role. These abilities are crucial for designing, optimizing, and testing proteins with desired properties, ensuring impactful contributions to research or product development.

What are popular job titles related to Protein Engineer jobs in Madison, WI?

For Protein Engineer jobs in Madison, WI, the most frequently searched job titles are:

What job categories do people searching Protein Engineer jobs in Madison, WI look for?

The top searched job categories for Protein Engineer jobs in Madison, WI are:

Infographic showing various Protein Engineer job openings in Madison, WI as of August 2026, with employment types broken down into 89% Full Time, 6% Part Time, and 5% Contract. Highlights an 87% Physical, 5% Hybrid, and 8% Remote job distribution, with an average salary of $89,346 per year, or $43 per hour.

Process Development Engineer

Scientific Protein Laboratories

Waunakee, WI • On-site

$85 - $125/hr

Other

Medical, Dental, Vision, Life, Retirement, PTO

Posted 26 days ago


Job description

Job DetailsJob Location: Scientific Protein Laboratories - Waunakee, WI 53597Position Type: Full TimeEducation Level: 4 Year DegreeJob Shift: DayJob Category: EngineeringJOB SUMMARY

Join our team at Scientific Protein Laboratories (SPL), a world leader in biosourced pharmaceuticals, located just outside of Madison, Wisconsin in Waunakee!SPL is an innovative biopharmaceutical leader with unique products and services supporting the pharmaceutical industry globally. For over 40 years, SPL specializes in the development and cGMP compliant manufacturing of Active Pharmaceutical Ingredients (APIs).SPL has an exciting opportunity to join the team as a Process Development Engineer.

Responsibilities
  • Lead the scale-up and technology transfer of new product manufacturing processes from laboratory and pilot-scale development to commercial manufacturing.
  • Implement, and optimize commercial manufacturing processes to ensure product quality, process robustness, and operational efficiency.
  • Identify process equipment and operating parameters for new manufacturing processes. Collaborate with Engineering and external equipment vendors to evaluate and implement manufacturing technologies.
  • Prepare process flow diagrams (PFDs), mass balances, process analyses, expected yield calculations, and manufacturing instructions.
  • Design, coordinate, and execute engineering batches to support process development, process optimization, and technology transfer activities.
  • Prepare technical reports, development protocols, SOPs, equipment operating instructions, and other engineering and manufacturing documentation.
  • Analyze manufacturing and production data to identify trends, improve process performance, maximize yields, and proactively prevent manufacturing issues.
  • Provide technical support for manufacturing operations, including troubleshooting, deviation investigations, root cause analysis, and implementation of corrective and preventive actions (CAPAs).
  • Support the qualification and validation of manufacturing equipment and processes, including IQ, OQ, and PQ activities.
  • Train Operations personnel on new manufacturing processes, process improvements, and equipment.
  • Participate as a technical representative on cross-functional project teams supporting internal initiatives and customer programs.
  • Serve as a technical interface with CDMO clients by supporting process development, technology transfer, and project execution activities.
  • Ensure all activities are conducted in compliance with cGMP requirements, company procedures, and applicable regulatory standards.
Job Requirements and Qualifications
  • Bachelor’s degree in chemical engineering or related engineering disciple.
  • Minimum of 3 years of relevant industrial experience, 5+ years of process development experience in pharmaceutical, biotechnology or CDMO environments is preferred.
  • Hands-on experience with process design, process development, scale-up, technology transfer, and manufacturing equipment.
  • Strong knowledge of process engineering principles and engineering methods used in pharmaceutical or biotechnology manufacturing.
  • Experience in pharmaceutical manufacturing, biologics, or related research and development environments is preferred.
  • Excellent analytical, problem-solving, technical writing, and communication skills.
  • Ability to work effectively in cross-functional teams and manage multiple priorities in a fast-paced manufacturing environment.
Why join SPL?
  • Perks include: competitive compensation; excellent benefits package - including Medical, Dental and Vision on Day 1; Life and AD&D Insurance, and Short and Long-term Disability; Health and Flexible Saving Account options; Employee Assistance Program, generous vacation; paid Holidays; 401k; advancement opportunities; team-oriented environment; community involvement; company events and more!

SPL is an equal opportunity employer. All qualified applicants will receive consideration for employment without regard to age, color, creed, disability, gender identity, national origin, protected veteran status, race, religion, sex, sexual orientation, and any other status protected by applicable local, state or federal law. Qualifications

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