Cambridge, MA Associate Director Finance

Flagship Pioneering is a biotechnology company that invents and builds platform companies that change the world. We bring together the greatest scientific minds with entrepreneurial company builders and assemble capital to allow them to take courageous leaps. Those big leaps in human health and sustainability exponentially accelerate scientific progress in areas ranging from cancer detection and treatment to nature-positive agriculture.

What sets Flagship apart is our ability to advance biotechnology by uniting life science innovation, company creation, and capital investment under one roof in a way that is largely without precedent. Our scientific founders, entrepreneurial leaders, and professional capital managers are each aligned around an institutionalized process that enables us to innovate and transform for the benefit of people and planet.

Many of the companies Flagship has founded have addressed humanity’s most urgent challenges: vaccinating billions of people against COVID-19, curing intractable diseases, improving human health, preempting illness, and feeding the world by improving the resiliency and sustainability of agriculture.

The Associate Director, Finance, will be a key member of the Flagship Pioneering finance team, responsible for supporting financial planning, reporting, accounting, forecasting, and operational finance activities across primarily the Pioneering Medicine’s ( PM ) portfolio of internal and partnered programs. This individual will partner closely with PM leadership, program teams, functional leaders, and cross‑functional finance and accounting stakeholders to provide financial insight, strengthen budget discipline, and support timely, high‑quality decision‑making in a dynamic biotechnology environment.

The role will manage core finance activities across assigned PM entities and programs, including budget‑to‑actuals, cash flow monitoring, management reporting, forecasting, close support, collaboration partner reporting, and ad hoc analysis. The Associate Director will also help improve finance processes, reporting standards, systems, and controls.

While this role is primarily focused on the Pioneering Medicines business unit , the successful candidate should also bring strong accounting and controllership capabilities and be able to provide cross‑functional support to Flagship Labs or related portfolio company finance teams as business needs require. This may include supporting close review, GAAP compliance, audit readiness, financial statement analysis, accounting operations, and process improvement initiatives in partnership with the broader finance organization.

• Serve as a finance partner to Pioneering Medicines leadership, program teams, functional leaders, and cross‑functional stakeholders, providing financial insights that support portfolio, program, and business decision‑making.
• Manage financial planning, forecasting, reporting, and analysis for assigned PM entities, asset companies, internal programs, and partnered programs, including budget‑to‑actuals, variance analysis, cash flow monitoring, and management reporting.
• Lead or support monthly, quarterly, and annual close activities, including accruals, journal entry and reconciliation review, financial reporting, flux analysis, and coordination with accounting and finance operations teams to ensure timely and accurate results.
• Partner with Program Managers and functional leaders to develop and maintain program‑level budgets, forecasts, operational plans, and financial models, including support for new asset proposals, ongoing program funding, and portfolio prioritization.
• Support financial management of research collaborations, partnered programs, and external pharma relationships, including collaboration budget tracking, reporting requirements, forecasting, joint finance meeting preparation, and review of relevant financial terms.
• Provide accounting and controllership support for PM, Flagship Labs, or related portfolio company needs as required, including GAAP compliance, audit support, financial statement review, close process support, ASC 842 lease accounting, capital…