Senior LIMS Engineer - Prenatal

A Rare Opportunity to Shape the Future of Genomics

Join a team of brilliant, passionate innovators determined to transform healthcare. At BillionToOne, we've built a category-defining, publicly traded company on Nasdaq where transparency fuels trust, collaboration drives breakthroughs, and every contribution moves the needle on our mission to make life-changing diagnostics accessible to all. We don't just aim for incremental improvements; we build products that are 10x better than anything that exists today.

Our scientists, engineers, sales executives, and visionaries are united by an unwavering commitment to changing the standard of care in prenatal and cancer diagnostics. This is where cutting-edge science meets human compassion, and every innovation you contribute helps remove the fear of the unknown from some of life's most critical medical moments.

If you're driven by purpose, energized by innovation, and ready to help shape the future of precision medicine at scale, this is where you belong.

We are looking for a Senior LIMS Engineer to join our Laboratory Information Management System (LIMS) team in support of clinical patient testing in our high-throughput CLIA lab. The Sr. LIMS Engineer will be responsible for (1) Deepening integration between existing BTO software and our clinical LIMS, (2) taking ownership of critical portions of the LIMS sample processing pipeline, and (3) maintaining, improving, and building LIMS applications, tools, and infrastructure.

This role will help to build upon the strong technology and execution found at BTO. This is considered an onsite role at our Union City lab, with flexibility to work from home or at our Menlo Park site when applicable.

Responsibilities:

• Develop modern, user-friendly, secure software for our clinical lab

• Solve complex issues in sample handling, automations, or infrastructure affecting lab processing

• Work as a part of cross-functional teams to gather requirements, facilitate user acceptance testing, iterate on feedback, file quality system paperwork, and launch products

• Work independently and prioritize projects based on company goals

• Mentor junior LIMS engineers and technical members of other teams in best practices

• Participate in performing LIMS code reviews, verifications, and validations

• Ensure compliance to all relevant corporate and regulatory requirements

Requirements:

• Bachelor's degree with Biological or Computational focus

• Experience with both Python and AI-assisted development

• 5+ Years experience with developing LIMS, apps, or customer-facing tools

• Ability to troubleshoot and diagnose advanced technical issues 

• Experience developing scripting solutions to automation problems

• Strong attention to detail and ability to work flexibly and well under accelerated timeframes

• Highly organized, strong written and verbal communication skills 

• Creative problem-solver who enjoys a variety of daily tasks

Nice-To-Haves:

• Experience working in CLIA Lab, medical device, or pharma

• Experience with data analysis using Python, SQL, or Excel

• Familiarity with Quality Management Systems and related regulations (CFR 21 Part 11, ISO 13485, etc) 

Benefits And Perks:

• Working alongside brilliant, kind, passionate and dedicated colleagues, in an empowering environment, toward a global vision, striving for a future in which transformative molecular diagnostics can help millions of patients

• Open, transparent culture that includes weekly Town Hall meetings

• The ability to indirectly or directly change the lives of hundreds of thousands patients

• Multiple medical benefit options; employee premiums paid 100% of select plans, dependents covered up to 80%

• Extremely generous Family Bonding Leave for new parents (16 weeks, paid at 100%)

• Supplemental fertility benefits coverage 

• Retirement savings program including a 4% Company match

• Increase paid time off with increased tenure

• Latest and greatest hardware (laptop, lab equipment, facilities)

• Daily on-site lunches provided from top eateries

• A variety of perks on campus (state of the art gym, restaurant)

• Free on-site EV charging (compatible with all EVs, including Tesla)

BillionToOne is an equal opportunity employer. We do not discriminate on the basis of race, religion, color, national origin, gender, sexual orientation, age, marital status, veteran status, or disability status.

BillionToOne is a next-generation molecular diagnostics company on a mission to make powerful, accurate diagnostic tests accessible to everyone. Our revolutionary QCT molecular counting technology enhances disease detection resolution by over a thousandfold using cell-free DNA,a breakthrough that has already transformed the lives of over half a million patients worldwide.

Our Impact

Unity Complete™ is the only non-invasive prenatal screen capable of assessing fetal risk for both common recessive conditions and aneuploidies from a single maternal blood sample.
Unity Confirm™enables non-invasive confirmation for high-risk screening results through the capture of intact circulating fetal cells using BillionToOne’s Fetal Cell Capture™ Technology.
Our Northstar® liquid biopsy test uniquely combines treatment selection with real-time monitoring, giving oncologists unprecedented precision in cancer care.

Our Growth

From $0 to $400M+ annualized revenue run-rate in just 6 years. In 2025, we completed one of the most successful IPOs for a medical diagnostics company, building on nearly $400M in private funding,including our $130M Series D in 2024 and backed by world-class investors including Hummingbird, Adams Street Partners, Neuberger Berman, Baillie Gifford, and Premji Invest.

Our Recognition

Forbes named us one of America's Best Startup Employers for 2025 and we're Great Place to Work certified, with 100% of our people willing to go the extra mile, even as we've scaled to over 700 employees.

Our Future

Headquartered in Menlo Park with facilities in Union City, CA, and a new lab opening in Austin, TX in 2027, we're continuing to push the boundaries of what's possible in molecular diagnostics. We're just getting started.