Associate Director, Finance Systems

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. BillionToOne is seeking an Associate Director of Finance Systems to serve as the strategic and operational leader for all financial technology platforms across our organization. This is a senior individual contributor and people-leadership role that sits at the intersection of finance, compliance, and technology—responsible for ensuring our systems infrastructure is scalable, audit-ready, and aligned with the demands of a public company operating under SOX Section 404(b). You will lead a team and act as the primary owner of our financial systems strategy, partnering closely with Accounting, Legal, HR, Billing, and IT to design and maintain a controlled environment that meets Big 4 audit scrutiny. Your deep experience with 404(b) compliance, ERP administration, and cross-functional system integrations will be foundational as BillionToOne continues to scale as a public company. Responsibilities: SOX 404(b) Compliance & Internal Controls Own and maintain the company's IT General Controls (ITGCs) framework, including logical access, change management, and computer operations controls across all in-scope financial systems. Lead all systems-related workstreams in support of the annual SOX 404(b) audit, coordinating directly with external auditors from Big 4 firms (Deloitte, PwC, EY, or KPMG). Serve as the primary point of contact for external auditors on IT controls—prepare, review, and deliver all requested evidence, walkthroughs, and documentation. Design and maintain control documentation, including risk and control matrices, narratives, and process flowcharts for all financially relevant systems. Partner with internal audit and outside advisors to proactively identify and remediate control gaps and deficiencies before audit fieldwork. Drive continuous improvement of the internal controls environment as the company grows and systems evolve. ERP & Financial Systems Strategy Serve as the senior system owner for NetSuite, overseeing system architecture, configurations, workflows, roles, permissions, and release management. Define and execute the multi-year financial systems roadmap, identifying technology investments that support scalability, compliance, and operational efficiency. Oversee evaluation, selection, and implementation of new financial technology platforms including revenue management, payment systems, FP&A tools, and HRIS integrations. Establish and enforce change management policies, including change request processes, UAT protocols, and go-live approval gates. Drive automation and process optimization initiatives across the finance and supply chain systems landscape. Cross-Functional Leadership & Stakeholder Partnership Act as the strategic liaison between Finance, Accounting, HR, Legal and IT, ensuring system design and project delivery align with operational needs and compliance requirements. Lead and mentor a team of Finance Systems analysts and administrators, setting clear goals, priorities, and professional development plans. Partner with the Controller and CFO to ensure systems readiness for monthly close, quarterly reporting, and audit cycles. Develop and maintain executive-level reporting on system health, project status, and risk exposure. Manage vendor relationships for key finance technology providers, including contract negotiations and performance reviews. Audit Readiness & Documentation Maintain comprehensive IT SOX documentation including control descriptions, testing evidence, and remediation tracking across all audit cycles. Prepare systems-level audit responses and coordinate responses to auditor requests with speed and precision. Ensure all financial systems provide full traceability, data integrity, and documentation required for external reporting and audit. Partner with the SEC reporting and technical accounting teams to ensure systems support accurate financial disclosures. Qualifications: 4+ years of experience working within a SOX Section 404(b)-compliant public company environment, with direct responsibility for IT General Controls or finance systems compliance. Demonstrated experience working at or directly with Big 4 audit firms (Deloitte, PwC, EY, or KPMG) in a public company context—including leading control walkthroughs, providing audit evidence, and managing deliverable timelines. 6+ years of hands-on NetSuite and other Finance system administration experience, including complex configurations, workflow automation, role design, and integration management. Deep understanding of SOX ITGC domains: logical access, change management, computer operations, and their application across financially relevant systems. Proven track record leading end-to-end finance systems implementations and technology projects in a public company setting. Bachelor’s degree in Accounting, Finance, Information Systems, Computer Science, or a related field. Strong command of financial operations, close processes, internal controls frameworks (COSO, COBIT), and audit methodologies. Experience with SOX-relevant systems including HRIS, equity management platforms, and related revenue recognition systems. Exceptional written and verbal communication skills; ability to present complex controls and systems topics clearly to executive audiences and external auditors. Proven ability to lead, develop, and retain a team in a fast-paced, high-growth environment. Highly detail-oriented with a track record of delivering accurate, audit-quality documentation. Nice-To-Haves: CPA, CISA, or relevant systems/audit certification. Experience managing a transition from 404(a) to 404(b) compliance, including readiness assessments and external auditor onboarding. Familiarity with data integration and middleware tools (e.g., MuleSoft, Boomi, Workato). Experience with ADP Workforce Now or other enterprise HRIS platforms. Exposure to SEC reporting cycles and working with investor relations or technical accounting teams. Experience in a diagnostics, biotech, or healthcare company navigating financial and regulatory compliance. 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 eligible employees (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) Free 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) At BillionToOne, we are proud to offer a combination of (1) competitive base pay, (2) the opportunity for professional growth, and (3) industry leading company benefits (free healthcare options, 401k match, very generous fully paid parental leave etc.). For this position, we offer a total compensation package of $376,177 per year, including a base pay range of $192,932 - $235,806 per year. 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. For more information about how we protect your information, we encourage you to review our Privacy Policy. 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. Ready to help us change the world, one molecule at a time? Learn more at billiontoone.com