Senior Machine Learning Scientist

This is a hands-on role on a cross-functional team. You will write clear, tested code, use modern AI tools to work faster, and work closely with the computational scientists, experimental biologists, engineers and target discovery leads who act on your results. The role is based in Cambridge, UK, and is hybrid, with a minimum of 3 days per week in the office.

Key Responsibilities

• Build and evaluate models that predict how coding and non-coding variants affect protein function, stability, interactions and pathway activity, using protein language models, structure-based methods and related approaches.
• Use variant-effect predictions to interpret somatic selection signals, including whether mutations are likely loss-of-function, gain-of-function or neutral, and where they cluster in protein structure.
• Design, build and evaluate AI agents and agentic workflows that retrieve evidence, run analyses and support hypothesis testing and target assessment.
• Train, fine-tune or adapt foundation models, language models and representation-learning methods for target discovery.
• Use AI coding tools to speed up development while keeping code readable, tested and reproducible.
• Work as a core member of cross-functional project teams, share ownership of team goals, and contribute to shared codebases, reviews and tools.
• Communicate results clearly to scientists and target discovery leadership, including model assumptions, limitations and next steps.

Qualifications

• PhD in machine learning, computer science, computational biology, genomics, bioinformatics, statistics, engineering or a related field, or an MSc with equivalent experience. Level (Scientist or Senior Scientist) will be set based on experience.
• Strong Python skills and experience building practical deep learning systems (e.g. PyTorch, JAX).
• Experience training, evaluating or applying ML models to complex real-world biological data.
• Understanding of how genetic variants affect protein structure and function, and experience with variant-effect prediction methods (e.g. protein language models such as ESM, structure-based models, or tools such as AlphaMissense).
• Regular use of AI coding assistants, LLM-based workflows or agentic development tools in your own work.
• Depth in one or more of the following: biomedical foundation models, AI agents, Perturb-seq or single-cell genomics, genotype–phenotype modelling, causal inference, perturbation modelling, or large-scale biological datasets.
• Proven ability to work in cross-functional teams and to explain technical results to non-specialists.
• Evidence of technical depth through papers, thesis work, open-source projects, industry projects or substantial applied research.

Values and Behaviours

• Encourage respectful disagreement and cultivate open-minded, ego-free interactions to continuously push each other towards excellence
• Seek out diverse perspectives; practice active listening and genuine curiosity to ensure all contributions are valued, regardless of source
• Recognize the impact of your behavior, language and attitudes, and strive for balanced, meaningful exchanges that enhance mutual growth and understanding in all interactions
• Use a company-first mindset to guide decision-making; prioritize team over individual success
• Take calculated risks and challenge convention in the quest for exceptional outcomes

About Quotient:

Quotient Therapeutics is a privately-held, early stage company developing breakthrough medicines informed by natural somatic genetic diversity present in patients. Through our work in somatic genomics, we are forging a new status quo for biopharma research and development across a broad pipeline of internal and partnered programs.

The company was founded by Flagship Pioneering, an innovative enterprise that conceives, creates, resources, and grows first-in-category life sciences companies. Flagship Pioneering has created over 100 groundbreaking companies over the past twenty years, all of which are pioneering novel and proprietary biological, industrial, and engineering approaches to solve major needs in human health and sustainability. These companies include Moderna (MRNA), Generate Biomedicines, Sana Biotechnology (SANA), Tessera Therapeutics, Evelo Biosciences (EVLO), Indigo Agriculture, Seres Therapeutics (MCRB), and Syros Pharmaceuticals (SYRS).

Quotient Therapeutics and Flagship Pioneering are committed to equal employment opportunity regardless of race, color, ancestry, religion, sex, national origin, sexual orientation, age, citizenship, marital status, disability, gender identity or Veteran status.

Recruitment & Staffing Agencies:

Quotient Therapeutics (“Quotient”) and Flagship Pioneering (“FSP”) do not accept unsolicited resumes from any source other than candidates. The submission of unsolicited resumes by recruitment or staffing agencies to Quotient, FSP or their employees is strictly prohibited unless contacted directly by Flagship Pioneering’s internal Talent Acquisition team. Any resume submitted by an agency in the absence of a signed agreement will automatically become the property of FSP, and FSP will not owe any referral or other fees with respect thereto.

Privacy Notice for Applicants: When you apply for a role at Flagship Pioneering or one of its portfolio companies, we collect and use personal information you provide (such as your name, contact details, work history, and application materials) to evaluate your application, communicate with you, and comply with legal obligations. Your application data is processed through Greenhouse, our applicant tracking system, and may also be reviewed using AI-assisted screening tools. We do not sell your personal information. California residents have rights under the CCPA/CPRA including to know, delete, and opt out of the sharing of their personal information. If you are located in the EU or UK, we process your data under GDPR and you have rights to access, rectify, and erase your data. To exercise your rights or for questions, contact -----

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