Sr. Scientist, AI/ML

Takeda-posted 6 months ago
$137,000 - $215,270/Yr
Full-time • Senior
Cambridge, MA
5,001-10,000 employees
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At Takeda, we are a forward-looking, world-class R&D organization that unlocks innovation and delivers transformative therapies to patients. By focusing R&D efforts on three therapeutic areas and other targeted investments, we push the boundaries of what is possible to bring life-changing therapies to patients worldwide. We are seeking an innovative and dynamic AI/ML Sr. Scientist with a passion for leveraging AI/ML in antibody discovery and design to join our Large Molecule AI/ML team. This role will be part of a multidisciplinary team focused on integrating advanced computational methods with cutting-edge experimental strategies to drive breakthrough discoveries in large molecule therapeutics and deepen our understanding of disease biology. The ideal candidate will have a strong background in computational biology, machine learning, and structural modeling and specifically with the application of AI/ML in biologics discovery.

  • Develop and implement state-of-the-art AI/ML methodologies for de novo antibody design and discovery, including fine-tuning protein language models and generative protein design.
  • Develop, implement, and deploy advanced machine learning algorithms for the multi-objective optimization of antibodies, antigens, ADCs, and other biologics.
  • Build tools to incorporate data from integrated Design-Predict-Make-Confirm cycles with automated experimental platforms generating quality data at scale needed for project-specific and foundational models.
  • Innovate, develop, and apply predictive models for protein design and developability engineering, utilizing large-scale NGS, in vitro, in vivo and other proprietary in-house and external data sources.
  • Manage and process large-scale biological datasets for model training and evaluation.
  • Stay abreast of advancements in NLP, ML, and generative AI to build novel tools that enhance therapeutic discovery and development.
  • Collaborate with internal experts to optimize the computational discovery infrastructure, offering both individual and team-based innovative solutions.
  • Communicate complex scientific ideas effectively to both technical and non-technical audiences, fostering collaboration across multidisciplinary teams.
  • PhD degree in a scientific discipline (or equivalent) with 2+ years relevant experience, or MS with 8+ years relevant experience, or BS with 10+ years relevant experience.
  • Proven track record in developing machine learning models for chemical and biological data, including AI/ML-enabled molecular generation and affinity prediction.
  • Demonstrated experience in modeling antibody/antigen sequence, structure and interaction.
  • Proficiency in programming languages such as Python and experience with cloud computing capabilities.
  • Strong analytical and problem-solving skills, with demonstrated creativity and the ability to contribute individually and collaboratively.
  • Versatile communicator who can elucidate complex ideas to non-specialists and commitment to continuous improvement and innovation.
  • Demonstrated learning agility, and scientific curiosity while maintaining focus on driving greater impact in the face of uncertainty and change.
  • Strong problem-solving aptitude and strategic thinking with an entrepreneurial mindset.
  • Experience developing or applying modern ML architectures for antibody design models (LLMs, diffusion models, flow-matching, Bayesian Optimization, GNNs, etc.)
  • Experience designing de novo binders for specified targets and epitopes.
  • Experience analyzing NGS-derived antibody repertoires for sequence- and structure-based design.
  • Experience with molecular simulation and conformational analysis techniques.
  • Medical, dental, vision insurance
  • 401(k) plan and company match
  • Short-term and long-term disability coverage
  • Basic life insurance
  • Tuition reimbursement program
  • Paid volunteer time off
  • Company holidays
  • Well-being benefits
  • Up to 80 hours of sick time per calendar year
  • Accrual of up to 120 hours of paid vacation for new hires
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