Scientist, Metabolomics

About the role

Alnylam’s Translational Research group is seeking a highly motivated Metabolomics Scientist to join our team. We use untargeted and targeted liquid chromatography-tandem mass spectrometry (LC-MS/MS)-based omics and computational biology to support biomarker discovery and target validation efforts for our RNAi-based therapeutics. The successful candidate will have a background in biological sample preparation for endogenous metabolites/lipids, LC-MS/MS operation/troubleshooting, and omics-level data analysis. This position is onsite and will be primarily located in Cambridge, MA.

Responsibilities

• Design, validate, and apply LC-MS/MS methods for endogenous metabolite and lipid quantification to identify and measure biomarkers, characterize pharmacodynamic activity of novel therapeutic molecules, and answer foundational biological questions.
• Perform end-to-end metabolite/lipid sample preparation protocols for biofluids, solid tissues, and cultured cells.
• Operate, maintain, and troubleshoot LC-MS systems as needed.
• Develop and apply bioinformatics tools for large-scale data processing and statistical analysis.
• Identify and onboard novel technologies for biomarker measurement and identification.
• Maintain QC records, analyze data, and document protocols/results in a clearly organized electronic lab notebook.
• Collaborate with cross-disciplinary and external teams to support preclinical and clinical drug discovery activities.
• Contribute to preclinical/clinical study design and biomarker strategies for drug candidate programs.
• Serve as subject matter expert for general questions pertaining to translational biology.
• Present results at internal/external meetings and author findings in reports/manuscripts.

Qualifications

• PhD in analytical chemistry, biochemistry, chemical engineering, biological engineering, or related field required, with post-doctoral experience a plus; or MS with 8+ years’ experience, preferably in pharma/biotech.
• Direct experience with triple-quadrupole and high-resolution accurate mass LC-MS/MS-based methods for endogenous metabolite/lipid quantification (ideally with Sciex QTRAP and Thermo Orbitrap systems), including assay development and validation.
• Experience with metabolite/lipid extraction sample preparation from biofluids, tissues, and/or cultured cells.
• Experience with relevant omics-based bioinformatics software; familiarity with basic programming languages (e.g. Python or R) and/or AI-based coding tools (e.g. Claude Code or Codex) is a strong plus.
• Experience with stable isotope tracing and/or metabolic flux analysis is also a plus.
• A strong publication record and demonstration of successful collaborations.
• Strong written and oral communication skills.
• Strong abilities to work both independently and in a team environment.
• Intellectual curiosity, a passion for science, critical thinking skills, and a willingness to ask questions.

Benefits

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 and family resources.

Pay

U.S. Pay Range $110,400 - $165,600 USD. 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).