Director, Health Data Science

Flagship Pioneering, Inc.; Cambridge (MA); On-site; USD 192,000 - 253,000; Full time

Job summary

Flagship Pioneering seeks a Director of Health Data Science to own the scientific agenda, model validation, and evidence generation for FL113. You will define the questions, assess clinical utility, and shape regulatory strategy while partnering with Engineering, Product, GTM, and health-system customers.

You will manage a multidisciplinary team, drive multi-year research milestones, and ensure rigorous data quality, reproducibility, and responsible AI use in a fast-moving early-stage company.

Qualifications

• PhD or master’s in biostatistics, computational biology, epidemiology, mathematics, CS, or related field.
• 8+ years in AI research, health data science, clinical evidence generation, or product development.
• Hands-on expertise with ML on structured and unstructured health data.
• Experience moving clinical AI from research to production with engineering teams.
• Excellent ability to communicate with clinicians and executives.

Responsibilities

• Set the scientific agenda with a multi-year research roadmap.
• Lead model development, evaluation plans, and validation criteria.
• Define data, endpoints, and study designs for evidence plans.
• Ensure research quality and mentor science staff.
• Collaborate with Product, Engineering, and GTM on readiness.
• Build real-world evidence plans for pilots and customer collaborations.

Skills

Health data science leadership

AI research

Clinical evidence generation

Model validation

Cross-functional collaboration

Python

PyTorch

Education

PhD or Master’s in quantitative field

Tools

PyTorch

scikit-learn

AI development workflows

Electronic health data (EHR/claims)

Job description

Who we are

FL113 is a fast-moving AI diagnostics company with a bold ambition: to define the future of pre-emptive and proactive care. We are building products that help uncover disease before it becomes visible, equip patients and care teams with earlier insight, and enable meaningful intervention before disease advances and causes irreversible harm. Our team brings together ML researchers, serial entrepreneurs, and clinical experts, united by a common commitment to make proactive care a reality.

About the role

The Director of Health Data Science owns FL113’s scientific agenda, model methodology and performance, clinical validation, and evidence generation. You will determine which scientific questions to pursue, how to assess model performance and clinical utility, and what evidence is required to support product readiness, customer adoption, and regulatory strategy.

You will work closely with peer leaders across Engineering, Product, and GTM, as well as customers, health-system partners, and the broader Flagship ecosystem, to shape product development and delivery. You will retain accountability for scientific rigor, model performance, and real-world evidence. Research defines scientific requirements and acceptance criteria; Engineering owns production architecture, implementation, deployment, and operations. Together, we will use evidence from models, pilots, and customers to refine product-market fit and build products that earn trust in the real world.

Key Responsibilities

Set the Scientific Agenda

• Own and continuously evolve a multi-year research roadmap spanning predictive modeling, causal inference, and longitudinal analysis, informed by scientific, clinical, product, and market evidence.
• Translate the research roadmap into practical milestones, decision gates, and resource requirements.
• Exercise pragmatic scientific and product judgment, connecting model performance to clinical value, customer ROI, and development time.
• Define and uphold fit-for-purpose standards for data quality, model validation, study design, reproducibility, and responsible use of AI.
• Apply AI-enabled tools and agentic workflows to accelerate research, experimentation, analysis, and team productivity.

Lead Model Development and Validation

• Define the scope and design of research programs, including indication selection, data strategy, modeling approach, endpoints, and validation criteria.
• Oversee model development and validation across structured and unstructured health data, including causal inference, deep learning, survival analysis, and longitudinal modeling.
• Own model methodology, evaluation plans, research code and prototypes, and the evidence required to establish performance and clinical utility.
• Review model results and limitations, mentor research scientists, and uphold scientific quality across the team.
• Define research dataset requirements, analytical schemas, feature definitions, and data-quality criteria in partnership with Engineering.

Establish Product Readiness

• Define scientific acceptance criteria and productization requirements with Product and Engineering.
• Develop model-readiness and validation plans that specify what must be demonstrated before a model moves into production or a customer pilot.
• Provide scientific requirements for interoperability, data architecture, deployment and monitoring while Engineering retains ownership of the production stack.
• Confirm that production implementations preserve validated model behavior and that monitoring plans can detect clinically meaningful performance changes.
• Inform feature requirements and launch readiness using model evidence, clinical utility, and customer needs.

Build Clinical Evidence and Scientific Credibility

• Design and oversee retrospective and prospective clinical studies with health-system partners.
• Establish the real-world evidence strategy for evaluating product performance, clinical utility, workflow impact, and economic benefit.
• Shape the scientific design and success criteria for pilots with biopharma companies, accountable care organizations, health systems, and other early customers.
• Partner with clinical and regulatory experts to develop evidence plans supporting clinical decision support and software-as-a-medical-device pathways.
• Work with GTM to define the scientific scope, data requirements and evidence commitments for customer and research collaborations.
• Communicate results, limitations, scientific risks, and technical opportunities clearly to internal and external stakeholders.
• Build FL113’s scientific credibility through engagement with key opinion leaders, publications, presentations, and external collaborations when appropriate.

Build and Lead the Research Organization

• Recruit, lead, and develop a multidisciplinary team spanning machine learning, clinical research, real-world evidence, biostatistics, and health economics.
• Set research priorities, direct day-to-day scientific operations, review technical work, and remove obstacles.
• Create a culture that combines scientific rigor with the speed and practical judgment required in an early-stage company.
• Establish effective working practices across Research, Engineering, Product, Clinical, Regulatory, and GTM.
• Develop team members through direct technical mentorship, clear expectations, and accountability for reproducible results.

What We Look For

• PhD or master’s degree in biostatistics, computational biology, epidemiology, mathematics, computer science, or another relevant quantitative discipline, combined with deep healthcare or life-sciences experience.
• At least 8 years of experience across AI research, health data science, clinical evidence generation, or product development, including success in early-stage or zero-to-one environments.
• Deep hands‑on expertise in machine learning for structured and unstructured health data, including causal inference, deep learning, survival analysis, and longitudinal modeling.
• Experience taking clinical AI models from research through real-world validation and into production in partnership with engineering teams.
• Experience designing, executing, and interpreting retrospective and prospective clinical studies.
• Fluency with modern research and machine learning tools, including Python, PyTorch, scikit‑learn, and AI‑enabled development workflows.
• Strong working knowledge of health data sources, including electronic health records, claims, omics, wearables, and digital biomarkers.
• Working knowledge of healthcare data standards and clinical vocabularies such as FHIR, HL7, OMOP, SNOMED, LOINC, ICD, CPT, and RxNorm.
• Familiarity with healthcare privacy, security, and compliance requirements, including HIPAA, HITRUST, and SOC 2.
• Experience communicating with clinicians, key opinion leaders, customers, executives, and other technical and non‑technical audiences.

What will make you an exceptional fit

• You thrive in ambiguity and are energized by zero-to-one company building.
• You pair scientific rigor with sound entrepreneurial judgment, comfortable making consequential decisions amid the uncertainty and imperfection of an early-stage venture.
• You have a track record of building, leading and inspiring high-performing, multidisciplinary teams in fast-moving environments.
• You communicate complex methods, results, limitations, and decisions with clarity and relevance across audiences – whether they are research scientists or business executives.
• You are AI-native, relentlessly applying agentic tools and workflows to accelerate research, sharpen experimentation, and amplify your team’s output.

ABOUT FLAGSHIP PIONEERING:

Flagship Pioneering invents and builds platform companies, each with the potential for multiple products that transform human health, sustainability and beyond. Since its launch in 2000, Flagship has originated more than 100 companies. Many of these companies 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.

Flagship has been recognized twice on FORTUNE’s “Change the World” list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies and has been twice named to Fast Company’s annual list of the World’s Most Innovative Companies. Learn more about Flagship atwww.flagshippioneering.com.

At Flagship, we accept impossible missions to enable bigger leaps. Our core values guide us through uncertainty and toward lasting impact.

We are an equal opportunity employer. All qualified applicants will be considered for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, protected veteran status, or any other characteristic protected by law.

We recognize that great candidates often bring unique strengths without fulfilling every qualification. If you have some of the experience listed above but not all, please apply anyway. We are dedicated to building diverse and inclusive teams and look forward to learning more about your background and interest in Flagship.

Recruitment & Staffing Agencies : Flagship Pioneering and its affiliated Flagship Lab companies (collectively, “FSP”) do not accept unsolicited resumes from any source other than candidates. The submission of unsolicited resumes by recruitment or staffing agencies to FSP or its employees is strictly prohibited unless contacted directly by Flagship Pioneering’s internal Talent Acquisition team. Any resume submitted by an agency in the absence of a signed agreement will automatically become the property of FSP, and FSP will not owe any referral or other fees with respect thereto.

Privacy Notice for Applicants: When you apply for a role at Flagship Pioneering or one of its portfolio companies, we collect and use personal information you provide (such as your name, contact details, work history, and application materials) to evaluate your application, communicate with you, and comply with legal obligations. Your application data is processed through Greenhouse, our applicant tracking system, and may also be reviewed using AI-assisted screening tools. We do not sell your personal information. California residents have rights under the CCPA/CPRA including to know, delete, and opt out of the sharing of your personal information. If you’re located in the EU or UK, we process your data under GDPR and you have rights to access, rectify, and erase your data. To exercise your rights or for questions, contact [e-mail].

The salary range for this role is $192,000 - $253,000. Compensation for the role will depend on a number of factors, including a candidate’s qualifications, skills, competencies, and experience. FL113 currently offers healthcare coverage, annual incentive program, retirement benefits and a broad range of other benefits. Compensation and benefits information is based on FL113’s good faith estimate as of the date of publication and may be modified in the future.

Privacy Notice for Applicants: When you apply for a role at Flagship Pioneering or one of its portfolio companies, we collect and use personal information you provide (such as your name, contact details, work history, and application materials) to evaluate your application, communicate with you, and comply with legal obligations. Your application data is processed through Greenhouse, our applicant tracking system, and may also be reviewed using AI-assisted screening tools. We do not sell your personal information. California residents have rights under the CCPA/CPRA including to know, delete, and opt out of the sharing of your personal information. If you’re located in the EU or UK, we process your data under GDPR and you have rights to access, rectify, and erase your data. To exercise your rights or for questions, contact [e-mail].