By clicking the Apply button I understand that my employment application process with Takeda will commence and that the information I provide in my application will be processed in line with Takedas Privacy Notice and Terms of Use. I further attest that all information I submit in my employment application is true to the best of my knowledge.

Job Description

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.

The AI/ML organization at Takeda is building a team to transform how medicines are discovered. Our goal is to apply AI and machine learning across the entire drug discovery process not just isolated steps but as an integrated approach from target identification through development. This requires discernment: knowing which models and methods fit each problem and the creativity to adapt when they dont. We work with foundational models generative approaches and autonomous systems but the tools only matter when paired with people who understand the science deeply enough to use them well. Our team brings together computational scientists biologists engineers and drug hunters. If you want to contribute your expertise to hard problems alongside colleagues with different perspectives and help shape how AI delivers real impact in drug discovery wed like to hear from you.

Position Overview:

We are seeking Senior Scientists to develop and deploy foundational AI models that will transform drug discovery across Takeda. As part of the AI/ML Foundation team you will build large-scale models including large language models (LLMs) diffusion models and multimodal architectures that integrate diverse data typesomics biomedical imaging protein 3D structures and molecular representations. This role requires deep expertise in modern deep learning architectures combined with foundational knowledge of biology chemistry and disease biology to ensure models are scientifically grounded and impactful. You will train models from scratch fine-tune pre-trained models for Takeda-specific applications and deploy foundation model capabilities that accelerate discovery across all therapeutic platforms.

Accountabilities:

• Develop and train foundational AI models (LLMs diffusion models flow-matching architectures) for drug discovery applications with capability to pre-train on large-scale scientific corpora and molecular datasets.
• Fine-tune and adapt pre-trained foundation models (protein language models chemical LLMs vision transformers) for Takeda-specific applications in target identification disease modeling and molecular design and discovery.
• Build multimodal foundation models integrating diverse data types including omics (genomics transcriptomics proteomics) biomedical imaging protein 3D structures and molecular representations.
• Apply and extend state-of-the-art approaches including graph neural networks transformer-based protein language models and multimodal learning frameworks.
• Apply domain expertise in biology chemistry and/or disease biology to guide model architecture decisions training data curation and evaluation strategies ensuring scientific validity.
• Implement state-of-the-art generative architectures (diffusion score-based models autoregressive transformers) for molecular generation protein design and multi-objective optimization.
• Collaborate with computational scientists across domains to deploy foundation models that address diverse discovery needs across small molecules biologics and emerging modalities.
• Stay current with advances in foundation models generative AI and multimodal learning; contribute to internal knowledge sharing and external publications.

Education & Requirements:

• PhD in Computer Science Machine Learning Computational Biology Bioinformatics or related field with 2 years relevant experience OR MS with 6 years relevant experience.
• Deep expertise in modern deep learning architectures including transformers diffusion models and/or generative models.
• Strong experience training large-scale models with proficiency in PyTorch and distributed training frameworks.
• Foundational knowledge of biology chemistry or disease biology sufficient to guide scientifically meaningful model development.
• Experience with at least one of: protein language models (ESM ProtTrans) molecular generative models or biomedical vision models.
• Experience with cloud computing (AWS GCP) and GPU cluster training at scale.

Preferred:

• Experience building or fine-tuning foundation models in pharmaceutical or life sciences settings.
• Expertise in multimodal learning integrating text images and structured molecular data.
• Experience with omics data analysis (genomics transcriptomics proteomics) and knowledge graph
• Familiarity with protein structure prediction and 3D molecular representations.
• Publications in top-tier ML venues (NeurIPS ICML ICLR) or computational biology journals.
• Experience with model compression efficient inference or production deployment of large models.
• Strong background in large-scale data integration and multimodal modeling for biological systems.
• Proficiency in Python and ML libraries (PyTorch TensorFlow scikit-learn); familiarity with Unix tools.
• Excellent collaboration and communication skills.

Additional Competencies Common in Strong Candidates

• Ability to lead cross-functional initiatives and mentor junior scientists.
• Experience in translating computational insights into experimental strategies.
• Strong publication record or demonstrated thought leadership in AI for biology and molecular design.
• Comfort working in fast-paced innovation-driven environments with evolving priorities.

ADDITIONAL INFORMATION

• The position will be based in Cambridge MA

Takeda Compensation and Benefits Summary

We understand compensation is an important factor as you consider the next step in your career. We are committed to equitable pay for all employees and we strive to be more transparent with our pay practices.

For Location:

U.S. Base Salary Range:

The estimated salary range reflects an anticipated range for this position. The actual base salary offered may depend on a variety of factors including the qualifications of the individual applicant for the position years of relevant experience specific and unique skills level of education attained certifications or other professional licenses held and the location in which the applicant lives and/or from which they will be performing the actual base salary offered will be in accordance with state or local minimum wage requirements for the job location.

U.S. based employees may be eligible for short-term and/ or long-term incentives. U.S. based employees may be eligible to participate in medical dental vision insurance a 401(k) plan and company match short-term and long-term disability coverage basic life insurance a tuition reimbursement program paid volunteer time off company holidays and well-being benefits among others. U.S. based employees are also eligible to receive per calendar year up to 80 hours of sick time and new hires are eligible to accrue up to 120 hours of paid vacation.

EEO Statement

Takeda is proud in its commitment to creating a diverse workforce and providing equal employment opportunities to all employees and applicants for employment without regard to race color religion sex sexual orientation gender identity gender expression parental status national origin age disability citizenship status genetic information or characteristics marital status status as a Vietnam era veteran special disabled veteran or other protected veteran in accordance with applicable federal state and local laws and any other characteristic protected by law.

Locations

Worker Type

Worker Sub-Type

Time Type

Job Exempt