Machine Learning Scientist
Flagship Pioneering · Somerville, MA USA
About this role
**Machine Learning Scientist** **About the Role** Join Cellarity's ML team to lead efforts in applying and adapting proprietary foundation models for our predictive drug discovery platform. You'll develop and apply AI methods to identify novel interventions and targets, accelerating early drug discovery through hands-on modeling of high-dimensional biological data. **Key Responsibilities** **Model Development** • Apply, fine-tune, and post-train foundation models (transformers, diffusion, VAE) on single-cell RNA-seq and other modalities • Build perturbation models using multi-modal data (small molecules, CRISPR, cytokines) with emphasis on CRISPR screen data • Develop mechanistic interpretability methods for gene networks and regulatory mechanisms • Deploy generative AI models on cloud platforms • Establish clinically relevant benchmarking frameworks • Stay current with latest research in foundation models and representation learning **Scientific Collaboration** • Work with interdisciplinary teams (biology, chemistry, technology) • Collaborate with other Flagship Pioneering companies • Communicate technical concepts to diverse audiences **Required Experience** • PhD in Computer Science, Computational Biology, or related field (OR Master's + 3 years OR Bachelor's + 6 years of relevant ML research) • Strong foundation in statistics, deep learning, and generative AI • Experience with high-dimensional biological data (RNA-seq, gene networks, multi-omics) • Experience with chemical/CRISPR perturbation screen data • Familiarity with single-cell foundation models (Geneformer, scGPT, scFoundation) • Experience fine-tuning pretrained foundation models • Cloud computing experience (AWS/GCP) and MLOps best practices • Excellent communication and teamwork skills **Nice to Have** • Experience building agentic AI systems for scientific discovery • Familiarity with target identification in drug discovery **Compensation & Benefits** Salary: $132,000 - $209,000 | Healthcare, annual incentive program, retirement benefits, and more **About Cellarity** Clinical-phase biotech startup using AI and single-cell omics to develop life-changing medicines. A Flagship Pioneering company (creators of Moderna, Generate:Biomedicines, Lila Sciences).
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