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Senior Director, AIRx Medicinal Chemistry

Boston, Massachusetts
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  • Job Level: Senior
  • Travel: Minimal (if any)

At Takeda, we strive to provide transformational opportunities for every member of our team, and we empower our people to take charge of their futures. In an environment that fosters lifelong learning and a growth mindset, you’ll have the support you need to thrive — at work and beyond.

Job ID R0180085 Date posted 05/12/2026 Location Boston, Massachusetts

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Job Description

Takeda Research is constructing a Lab of Tomorrow built on AI, automation, new ways of working, and talent with the singular vision of delivering differentiated medicines to the clinic at speed and cost. To catalyze these efforts, Takeda is creating two complementary units: AI Research Accelerator (AIRx) and Lab Automation & Transformation (LAT). 

AIRxwill consist of a dedicated group of experienced drug hunters with the autonomy of a biotech and the resources of a leading pharmaceutical company. It is designed to incubate the future AI-powered operating models and deliver candidates to the clinic at industry leading speed and success rates.

Purpose

This is medicinal chemistry as it should be — pure design, at speed, with the best tools available. You will work at the frontier of AI-enabled molecular design: evaluating generative proposals, applying deep SAR judgment, and directing CRO synthesis to close DMTA cycles faster than any traditional discovery team. No synthetic bench. No compound store. Just expert chemistry thinking applied at maximum velocity.

TheAIRxMedicinal Chemist is a seasoned drug hunter who thrives in lean, autonomous environments and is excited to work at the frontier of AI-driven drug design. Strong SAR intuition, decisiveness, and the confidence to challenge computational outputs are as important as deep chemistryexpertise.We are not looking for someone who will defer to the AI. We are looking for someone who will argue with it, stress-test its proposals against hard-won SAR experience, and make better molecules because of that tension. If you have deep chemistry instinct and genuine curiosity about what generative AI can and cannot do — this is where that combination produces real impact.

Accountabilities

  • Design and optimize drug candidates using deep SAR intuition, multi-parameter optimization, and ADME-embedded design principles

  • Integrate AI/ML-generated design proposals with medicinal chemistry judgment — critically evaluating computational outputs, not simply accepting them

  • Partner closelywith Computational Chemistry colleagues to close DMTA cycles rapidly; contribute to defining next design iterations

  • Provide strategic oversight ofCRO synthesis programs: define compound lists, review synthetic routes, and ensure quality and delivery timelines

  • Embed selectivity, developability, and IP considerations into design decisions from the outset

  • Interpret structural biology data (X-ray, cryo-EM) in partnership with Structural Biology contacts to guide optimization

  • Stay current with competitive chemical matter and emerging chemistry approaches; proactively apply new methods

  • Contribute to AI/ML training datasets by ensuring experimental data is captured in standardized, decision-ready format

Qualifications & Competencies

  • PhD in medicinal chemistry or organic chemistry

  • 12-15+ years of drug discovery experience with a strongtrack recordin lead optimization and candidate nomination

  • Demonstratedexpertisein SAR-driven design, ADME optimization, and multi-parameter optimization across multiple programs

  • Experience directing CRO-based chemistry programs; proven vendor oversight and delivery management

  • Working knowledge of AI/ML design tools; ability to critically interpret and challenge computational outputs

  • Familiarity with structure-based drug design; ability to read and apply protein-ligand structural data

  • Experience in one or more therapeutic areas across the Takeda Research portfolio preferred

  • Hasoperatedin SWAT team, rapid-response, or focused asset team environments and knows the difference between productive urgency and firefighting — and thrives in the former

ADDITIONAL INFORMATION

  • The position will be based in Cambridge, MA.  This position is currently classified as “hybrid” by Takeda’s Hybrid and Remote Work policy

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:

Boston, MA

U.S. Base Salary Range:

$212,000.00 - $333,190.00


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 job. 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

Boston, MA

Worker Type

Employee

Worker Sub-Type

Regular

Time Type

Job Exempt

Yes

It is unlawful in Massachusetts to require or administer a lie detector test as a condition of employment or continued employment. An employer who violates this law shall be subject to criminal penalties and civil liability.
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Where you fit in

Our team at Takeda is tackling some of the most challenging problems in drug discovery and development. As the newest member of our Research team, you’ll conduct purposeful, meaningful work on groundbreaking modalities that may lead to breakthrough drugs.

With our deep investment in next-generation technologies, you’ll have the resources and support to do your best work. As a part of our team, you’ll connect with brilliant minds inside and outside of Takeda. We are committed to collaborating with academia and emerging biotech companies to expand our reach and impact in cell therapy, gene therapy and data sciences.

Our team’s wide-ranging expertise includes medicinal chemistry, genomics datasets, immunofluorescence, high content imaging, flow cytometry, transcriptional profiling, multi-step synthesis, multimodal genetics, pharmacokinetics and much more. Whatever area inspires you, your work will support the progression of an innovative, industry-leading discovery pipeline and make an impact that matters to patients and society.

We are committed to collaborating with academia and emerging biotech companies to expand our reach and impact in Oncology, Neuroscience, Gastrointestinal and Inflammation, Rare Diseases, and Data Sciences.

  • Design and carry out experiments

  • Manage multiple projects

  • Document data

  • Mentor other scientists

Along with incredibly passionate colleagues, there’s a clear commitment to invest in the best facilities and the right equipment needed to successfully perform world-class science.

Christina Alves - Head of Biotherapeutics Process Development

Our pipeline

Our internal research capabilities and external partnerships contribute to an R&D engine that has produced exciting new molecular entities (NMEs) across our core Therapeutic Areas. Check out our pipeline and see how we’ll continue delivering a steady stream of next-generation therapies.

Learn more

What we believe in

Our values of Takeda-ism are Integrity, Fairness, Honesty and Perseverance, with Integrity as the core. These are brought to life through actions based on Patient, Trust, Reputation and Business, in that order.

Our belief in putting people first extends beyond our patients — it includes their families and communities, as well as our Takeda colleagues and their families.

We are committed to embracing our differences, valuing different perspectives, and fostering a culture of respect, inclusiveness and empowerment.

Our embedded Diversity, Equity & Inclusion (DE&I) strategy enables us to attract and retain exceptional talent, drives innovation, and helps address systemic inequalities in our communities.

  • Integrity

  • Fairness

  • Honesty

  • Perseverance

Working at Takeda

  • Inclusion

    Here, you will feel welcomed, respected, and valued as a vital contributor to our global team.
  • Collaboration

    A strong, borderless team, we strive together towards our priorities and inspiring mission.
  • Innovation

    Bold initiatives, continuous improvement, and creativity are at the heart of how we bring scientific breakthroughs from the lab to patients.
  • Great Place to Work

    Recognized for our culture and ways of working, we’re proud to be Certified as a Great Place to Work® in 25 countries and regions.
  • Work-Life

    Our people-first mission extends beyond patients to include their families, communities, and our own Takeda family.
  • Empowerment

    Through trust and respect, you will have genuine support from leaders, managers, and colleagues to do your best work.

We're Steadfast In Our Commitment to Four Key Imperatives

Patient


Responsibly translate science into highly innovative medicines and accelerate access to improve lives worldwide.

People


Create an exceptional people experience.

Planet


Protect our planet.

Data & Digital


Transform Takeda into the most trusted, data-driven, outcomes-based biopharmaceutical company.

Exterior of Takeda Building

About our location

Boston, Massachusetts


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