Director, Research AI

Alnylam Pharmaceuticals · Cambridge · $193,200–$289,800 (stated in the posting)

Overview

Alnylam Pharmaceuticals is seeking a highly technical and strategic Director of Artificial Intelligence to lead the expansion of AI capabilities across the Research organization. This role will establish and lead a focused team to design and deploy next-generation agentic workflows that integrate directly into scientific research and the discovery of novel siRNA therapeutics.

The Director will play a central role in partnering with Research teams to embed AI into daily scientific workflows, enabling faster, more scalable, and more reproducible discovery processes. This is a hands-on leadership role combining computational biology, AI engineering, and platform design, with strong partnership across Research and IT to deliver durable, enterprise-aligned solutions.

You will join a growing Data & AI organization (20+ scientists and engineers) focused on transforming Alnylam into an AI-enabled research enterprise.

Responsibilities

Embed AI into Scientific Workflows (Primary Focus)

Partner deeply with Research teams to embed AI-driven solutions into day-to-day scientific workflows
Identify high-value opportunities to augment target and ligand discovery, and where appropriate, experimental design, data analysis, and decision-making
Drive adoption and measurable impact through close collaboration with assay teams and scientific leadership

Develop and Deploy Agentic AI Workflows

Architect and deploy multi-agent systems that automate and orchestrate core research activities, including:
- - Target Discovery that encompasses human genetics datasets
  - Ligand Discovery for the delivery of siRNAs to novel tissues and cell types
  - Competitive intelligence (landscape monitoring, literature synthesis, target scouting)
  - Experimental design and hypothesis generation
  - Data analysis and interpretation
  - Knowledge synthesis from public and in-house data
Integrate coding agents, research agents, and evaluation frameworks into scientific pipelines
Ensure systems are scientifically grounded, validated, and continuously improved via lab feedback loops

Lead AI Strategy & Scientific Enablement

Define and execute the AI roadmap for Research aligned to Alnylam’s broader Data & AI strategy
Drive adoption of AI to improve speed, quality, and scalability of research workflows
Identify and prioritize AI use cases with clear scientific and operational impact

Build and Lead an AI Engineering & Science Team

Recruit, lead, and develop a 3–5 person interdisciplinary team of data scientists and software engineers
Establish a high-performance culture blending scientific rigor with agentic software engineering discipline
Provide hands-on technical leadership in AI/ML, agent development, and production deployment

Integrate with Enterprise Data & IT Platforms

Partner with IT to integrate AI workflows into the enterprise data platform and lakehouse environment
Contribute to secure, scalable, and compliant AI systems across AWS and GCP environments
Ensure alignment with data governance, security, and regulatory standards

Deliver Production-Grade Systems

Oversee development of robust pipelines, model deployment frameworks, and evaluation systems
Drive best practices in MLOps, reproducibility, and model validation
Ensure AI solutions are reliable, scalable, and operationalized within Research

Support Computational Enablement of Design Efforts

Provide computational and infrastructure support for ligand and antibody design efforts
Work with the Alnylam Human Genetics (AHG) team to bring best-in-class AI workflows to human genetics analyses
Partner with domain experts to ensure alignment with ongoing design strategies and scientific leadership

Qualifications

Education & Experience

PhD (or MS with equivalent experience) in Computational Biology, Computer Science, AI/ML, or related field
10+ years of computational biology experience applying AI/ML in industry, preferably within drug discovery
Proven experience leading technical teams and delivering AI-driven products or platforms in complex environments

Technical Expertise

Demonstrated experience building agentic or multi-agent AI systems and workflow automation
Programming experience (Python; full-stack development preferred)
Experience developing production-grade ML/AI systems
Experience with AWS (including Bedrock) and/or GCP environments
Experience with modern LLM ecosystems and data integration at scale

Domain Knowledge

Experience in biopharma research or drug discovery environments
Understanding of experimental workflows and scientific data generation
Familiarity with nucleic acid-based therapeutics is preferred

Preferred Qualifications

Experience building AI systems integrated with lab-in-the-loop workflows
Familiarity with enterprise data platforms and regulated environments
Track record of deploying AI solutions in cross-functional organizations

Why Join Alnylam

Build agentic AI systems that directly impact scientific workflows and lend further speed to our already speedy rationale-design siRNA discovery pipeline.
Work at the interface of computational science, engineering, and drug discovery
Shape how AI is operationalized across a leading RNAi therapeutics organization
Deliver life-altering medicines to patients in need of novel therapies

About Alnylam

We are the leader in RNAi therapeutics – a revolutionary approach with the potential to transform the lives of people with rare and common diseases. Built on Nobel Prize-winning science, Alnylam has delivered the breakthroughs that made RNAi therapeutics possible and are just at the beginning of what’s possible. Our deep pipeline, late-stage programs, and bold vision reflect our core values: fierce innovation, passion for excellence, purposeful urgency, open culture and commitment to people. We're proud to be a globally recognized top employer, where an authentic, inclusive culture and breakthrough thinking fuel one another.

At Alnylam, we commit to an inclusive recruitment process and equal employment opportunity. Qualified applicants will receive consideration for employment without regard to their sex, gender or gender identity, sexual orientation, race, color, ethnicity, national origin, ancestry, citizenship, religion, creed, physical or mental disability, pregnancy status or related conditions, genetic information, veteran or military status, marital or familial status, political affiliation, age, or any other factor protected by federal, state, or local law. Alnylam is an E-Verify Employer.

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The pay range below reflects the full-time base salary range we expect to pay for this role at the time of posting. Base pay will be determined based on a number of factors including, but not limited to, relevant experience, skills, and education. This role is eligible for an annual short-term incentive award (e.g., bonus or sales incentive) and an annual long-term incentive award (e.g., equity).

Alnylam’s robust Total Rewards package is designed to support your overall health and well-being. We offer comprehensive benefits including medical, dental, and vision coverage, life and disability insurance, a lifestyle reimbursement program, flexible spending and health savings accounts and a 401(k)with a generous company match. Eligible employees enjoy paid time off, wellness days, holidays, and two company-wide recharge breaks. We also offer generous family resources and leave. Our commitment to your well-being reflects our belief that caring for our people fuels the impact we create together.

Learn more about these and additional benefits offered by Alnylam by visiting the Benefits section of the Careers website: https://www.alnylam.com/careers

U.S. Pay Range

$193,200—$289,800 USD

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