At Roche, we are developing the next-generation of sequencing systems. By accelerating clinical research, streamlining workflows, and expanding assay menus, we are also broadening access to genomic data and lowering barriers to adoption. From robust sample isolation and preparation tools to novel sequencing technology and advanced bioinformatics, we are developing differentiated, highly integrated end-to-end solutions for next-generation sequencing workflows.

Our Workflow Automation R&D Group, a part of Roche Sequencing Solutions, is focused on enhancing sequencing workflows. We are seeking a highly collaborative Principal II Automation Research Engineer to lead and contribute to the research and development of current and future automated platforms, while simultaneously building the tools to democratize key processes and eliminate bottlenecks. This is a hands-on, multidisciplinary role focused on solving automation challenges, integrating AI tools to streamline workflows, and tackling the fluidic, mechanical and consumables challenges at the heart of our next-generation platforms. We are looking for someone who exhibits a high degree of motivation, independence, and resourcefulness to help us develop solutions to our automation challenges in a fast-paced and collaborative environment.

Core Responsibilities

• You will utilize AI-assisted coding and modern software development tools to accelerate protocol generation, protocol simulation, debugging, test suite development, and automated error recovery.

• You will use the above tools to full automate and optimize complex workflows (i.e. sample prep, library prep, target enrichment, quantification, pooling, and sequencing)

• You will test scripts and validate system performance through various analytical equipment and data analysis pipelines

• You will contribute to architecture, design, research and development of next-generation automation platforms. Design, build, assemble and operate custom test fixtures to support testing of these platforms, modules and sub-systems.

• You will translate high-level system and assay requirements into fluidic schematics, system architectures and concepts to evaluate, compare, and downselect design paths.

• You will create and maintain comprehensive documentation for all work, from requirements, schematics, diagrams, CAD models, manufacturing drawings, and material specifications.

• You demonstrate strong technical leadership skills and will mentor junior engineers and research staff, fostering a culture of technical excellence and continuous learning within the team.

• You will lead cross-functional strategy and influence product roadmaps by partnering directly with Assay Development Scientists, Hardware Engineers, Software Developers, and Product Managers. Conduct cross-functional concept, code/script and design reviews. Present progress, data, and engineering decisions clearly to stakeholders.

This is an on-site (5 days) position based in Santa Clara, CA. (A portion of the work will also take place in Pleasanton, CA. A connector shuttle is available.)
Relocation benefits are not being offered for this role.

Please include a cover letter with your application.

Who You Are:

(Required)

• You have a degree in Bioengineering or Biomedical Engineering, or a closely related discipline, with relevant industry experience (12+ years for a Bachelor's, 10+ years for a Master's, or 7+ year for a PhD).

• You have deep, hands-on expertise characterizing and testing complex automation systems for sequencing or diagnostics.

• You have demonstrated hands-on experience using modern AI-assisted tools to accelerate code generation, parse schemas, and automate test cases.

• You have demonstrated experience with markup and programming languages (e.g., XML, Python) used to define automated instrument steps and hardware execution.

• You have a strong background in experimental design. 

• You are highly proficient with machine shop tools, measurement equipment, and rapid prototyping technologies. 

• You have expert-level troubleshooting skills, with a solid understanding of physics, chemistry and engineering fundamentals. 

• You have an in-depth understanding of sequencing chemistry and sequencing workflows.

• You have a proven track record of technical leadership, including successfully leading complex projects and mentoring junior technical staff.

Preferred Qualifications:

• You have a high level of experience with DNA sequencing, DNA synthesizers and other complex fluidic automation instrumentation.

• You have a demonstrated track record of acting as a bridge between scientists and the hardware/consumables engineers.

• You have excellent organizational skills with the ability to manage multiple project tracks efficiently and thrive in ambiguous, fast-paced environments.

• You have experience working with a sense of urgency, contagious optimism, and natural curiosity regarding technical, business, and market trends.

• You have demonstrated experience in SolidWorks for part design, detailed assembly design and the creation of manufacturing drawings.

The expected salary range for this position based on the primary location of Santa Clara, CA is $131,000 - $243,500.  Actual pay will be determined based on experience, qualifications, geographic location, and other job-related factors permitted by law.  We encourage all qualified applicants to apply. The role's level (& title) may be adjusted based on experience and qualifications. A discretionary annual bonus may be available based on individual and Company performance.

This position also qualifies for the benefits detailed at the link provided below.