Flagship Pioneering
Senior Machine Learning Scientist
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Senior Machine Learning Scientist
Senior Machine Learning Scientist
Position Summary
Quotient is seeking a Senior Machine Learning Scientist to build AI and machine learning systems that transform complex biological data into actionable scientific insight. You will work at the intersection of ML, genomics, causal biology, and target discovery, building models, agentic workflows, and AI-assisted tools that connect genotype, cell state, perturbation, phenotype, and disease mechanisms.
This is a hands-on role for someone who:
- Writes strong code
- Leverages modern AI tools to accelerate progress
- Wants their work to shape real biological and therapeutic decisions
Responsibilities
- Build ML models for genomic, single-cell, perturbation, and phenotype data
- Develop agentic AI workflows to help scientists analyze data, test hypotheses, and improve decision-making
- Use AI coding tools to speed up development while ensuring code remains reliable, readable, tested, and reproducible
- Train and fine-tune foundation models, language models, and representation learning methods for target discovery
- Model relationships between genotype, cell state, perturbation response, causal biology, and disease
- Collaborate closely with:
- Computational scientists
- Experimental biologists
- Software engineers
- Target discovery teams
- Communicate results clearly, including:
- Model assumptions
- Limitations
- Next steps
Qualifications
You do not need to meet every criterion—strong candidates come from academia, industry, open-source work, or hands-on research.
- PhD, Master’s degree, or equivalent experience in:
- Machine learning
- Computer science
- Computational biology
- Genomics
- Bioinformatics
- Statistics
- Engineering
- Related fields
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Strong Python coding skills with experience building practical deep learning ML systems
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Experience using:
- AI coding tools
- AI-assisted workflows (LLM-based or agentic development tools)
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Experience training, evaluating, or applying ML models to complex real-world data
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Depth in one or more areas:
- Biomedical foundation models
- Agentic AI
- Perturb-seq
- Single-cell genomics
- Genotype–phenotype modeling
- Causal inference
- Perturbation modeling
- Large-scale biological datasets
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Evidence of technical depth through:
- Research papers
- Thesis work
- Open-source projects
- Industry projects
- Substantial hands-on applied research
Values and Behaviors
Quotient values a culture of intellectual curiosity, collaboration, and mutual respect, fostering growth through open and honest exchanges. Ideal candidates:
- Encourage respectful disagreement and open, ego-free interactions
- Actively seek diverse perspectives and practice genuine curiosity
- Recognize the impact of their behavior, language, and attitudes
- Adopt a company-first mindset, prioritizing team success
- Embrace calculated risk-taking and challenge convention for exceptional outcomes
About Quotient Therapeutics
Quotient Therapeutics is a privately-held, early-stage biopharma company developing breakthrough medicines informed by natural somatic genetic diversity in patients.
With roots in Flagship Pioneering, a pioneer in creating innovative life sciences companies, Quotient leverages somatic genomics to redefine biopharma R&D.
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Significant Work by Flagship Pioneering
- Moderna (MRNA)
- Generate Biomedicines
- Sana Biotechnology (SANA)
- Tessera Therapeutics
- Evelo Biosciences (EVLO)
- Indigo Agriculture
- Seres Therapeutics (MCRB)
- Syros Pharmaceuticals (SYRS)
Diversity & Inclusion
Quotient Therapeutics and Flagship Pioneering are committed to equal employment opportunity and adhere to principles of diversity, ensuring fairness regardless of:
- Race
- Color
- Ancestry
- Religion
- Sex
- National origin
- Sexual orientation
- Age
- Citizenship
- Marital status
- Disability
- Gender identity
- Veteran status
Candidates Only
Quotient and Flagship Pioneering do not accept unsolicited resumes from recruitment or staffing agencies unless directly contacted by Flagship Pioneering’s internal Talent Acquisition team.
Unauthorized resumes automatically become Quotient/Flagship property without referral fees.
Privacy Notice for Applicants
When applying, Quotient and Flagship collect and use your personal data (e.g., contact details, work history, application materials) for:
- Evaluation
- Communication
- Legal compliance
Data processing occurs via Greenhouse and may include AI-assisted screening.
Key Rights for Candidates
- California (CCPA/CPRA) Rights: Know, delete, or opt out of sharing data.
- EU/UK Rights: Access, rectify, or erase data (GDPR).
- Questions or rights requests: privacy@flagshippioneering.com
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