Flagship Pioneering
(Senior) Scientist, Machine Learning
$180K–$258K
Cambridge, MA USA +1 · Senior · Full-time · Posted Jun 15, 2026
- Location
- Cambridge, MA USA
Expedition Medicines - Experience
- 2+ years of industry experience with a Ph.D., or 6+ years of industry experience with an M.S.
- Education
- Ph.D. in machine learning, computational chemistry, chemical physics, computer science, applied mathematics, or a related discipline; or M.S. degree.
About the job
Develop and apply machine learning methods, generative models, and evaluation benchmarks that connect chemoproteomics data and quantum chemistry to covalent drug discovery and molecular design.
What you'll do
- Develop and evaluate ML methods, featurization pipelines, and rigorous benchmarks for molecular and chemoproteomics data.
- Apply and refine foundational and generative models to support compound design and prioritization with medicinal chemistry teams.
- Curate scientific datasets, collaborate across research and engineering teams, and communicate findings.
What they ask for
- Ph.D. in machine learning, computational chemistry, chemical physics, computer science, applied mathematics, or a related discipline with 2+ years of industry experience, or M.S. degree with 6+ years of industry experience.
- Experience with quantum chemistry, DFT, electronic structure methods, or post-DFT descriptors.
- Experience building molecular ML models and applying generative models, molecular design models, or active learning to drug discovery or chemistry optimization.
- Experience with model evaluation and validation, scientific dataset curation and analysis, and collaboration with medicinal chemistry teams.
Nice to have
- Proficiency with Python, PyTorch, PyTorch Geometric, DGL, RDKit, ORCA, Gaussian, Q-Chem, or related tools.
- Experience with covalent chemistry, reaction modeling, structure-based design, or chemoproteomics data; relevant publications or preprints are a strong plus.
Pay
$180,000 - $258,500 USD base salary
Tools
Python, PyTorch, PyTorch Geometric, DGL, RDKit, ORCA, Gaussian, Q-Chem
AI focus
Develop and apply machine learning and generative models for covalent drug discovery, molecular design, and analysis of chemoproteomics and quantum chemistry data.
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