{"id":1938096,"url":"https://alion.io/job/flagship-pioneering-senior-machine-learning-scientist","title":"Senior Machine Learning Scientist","company":{"id":8393,"name":"Flagship Pioneering","domain":"flagshippioneering.com","url":"https://alion.io/company/flagshippioneering","size_band":"1001-5000","is_staffing_agency":false,"employer_type":"direct","is_intermediary":true,"listed_via":null,"ats_vendor":"Greenhouse","truth_index":{"grade":"A","score":85,"open_postings":10,"ghost_share":0,"stale_share":0.4,"repost_share":0,"time_to_fill_p50_days":63,"computed_at":"2026-10-20T05:45:00Z"}},"role":"AI/ML","role_family":"AI/ML","seniority":"senior","employment_type":null,"work_mode":"hybrid","remote_scope":null,"remote_scope_basis":null,"remote_working_hours":null,"hiring_geo_confidence":"explicit","locations":["Cambridge, United Kingdom"],"countries":["GB"],"hiring_countries":[],"hiring_countries_total":0,"salary":null,"salary_estimate":{"min_usd":111000,"max_usd":208000,"period":"year","method":"role_seniority_country_remote_cell","sample_n":40},"experience_years_min":null,"visa_sponsorship":false,"relocation_package":false,"has_equity":false,"technologies":[{"name":"Agentic Workflows","optional":false},{"name":"AI Agents","optional":false},{"name":"GDPR","optional":false},{"name":"JAX","optional":false},{"name":"LLM","optional":false},{"name":"Machine Learning","optional":false},{"name":"Python","optional":false},{"name":"PyTorch","optional":false}],"status":"live","first_seen_at":"2026-10-06T00:20:44Z","employer_posted_date":"2026-10-06","last_verified_at":"2026-10-20T21:54:38Z","board_verified":true,"closed_at":null,"days_open":14,"trust":{"level":"ok","repost_count":null,"flags":[],"days_open":14},"description":"(Senior) Scientist, Machine Learning\nAbout Quotient Therapeutics\nQuotient Therapeutics is a Flagship Pioneering company that uses somatic genomics to discover drug targets. We use high-accuracy sequencing to find rare somatic mutations in cells from non-cancerous diseased human tissue. Mutations that help cells survive or expand in a disease environment point to causal biology. We use that evidence to nominate and assess targets, and to decide whether a target should be copied (protective mutations) or opposed (disease-driving mutations).\nThe Role\nQuotient is seeking a (Senior) Scientist, Machine Learning to build models and AI agents that turn our somatic mutation data into evidence for target discovery. A central question is what a given mutation does to a protein, and whether that effect explains why cells carrying it are selected in disease. You will build models of variant effects on protein function and connect them to genomic, single-cell, perturbation and phenotype data. You will also develop agentic AI workflows that help scientists analyse data, test hypotheses and make decisions.\nThis 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.\nKey Responsibilities\nBuild 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.\nUse 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.\nDesign, build and evaluate AI agents and agentic workflows that retrieve evidence, run analyses and support hypothesis testing and target assessment.\nTrain, fine-tune or adapt foundation models, language models and representation-learning methods for target discovery.\nUse AI coding tools to speed up development while keeping code readable, tested and reproducible.\nWork as a core member of cross-functional project teams, share ownership of team goals, and contribute to shared codebases, reviews and tools.\nCommunicate results clearly to scientists and target discovery leadership, including model assumptions, limitations and next steps.\nQualifications\nPhD 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.\nStrong Python skills and experience building practical deep learning systems (e.g. PyTorch, JAX).\nExperience training, evaluating or applying ML models to complex real-world biological data.\nUnderstanding 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).\nRegular use of AI coding assistants, LLM-based workflows or agentic development tools in your own work.\nDepth 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.\nProven ability to work in cross-functional teams and to explain technical results to non-specialists.\nEvidence of technical depth through papers, thesis work, open-source projects, industry projects or substantial applied research.\nValues and Behaviours\nEncourage respectful disagreement and cultivate open-minded, ego-free interactions to continuously push each other towards excellence\nSeek out diverse perspectives; practice active listening and genuine curiosity to ensure all contributions are valued, regardless of source\nRecognize the impact of your behavior, language and attitudes, and strive for balanced, meaningful exchanges that enhance mutual growth and understanding in all interactions\nUse a company-first mindset to guide decision-making; prioritize team over individual success\nTake calculated risks and challenge convention in the quest for exceptional outcomes\nAbout Quotient:\nQuotient 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. \nThe 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).\nQuotient 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.\nRecruitment & Staffing Agencies:\nQuotient 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.\nPrivacy 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 .","description_format":"text","description_chars":7143,"description_truncated":false,"requirements":{"experience_years_min":null,"management_years_min":null,"team_size_min":null,"manages_managers":false,"education":{"level":"phd","optional":false},"security_clearance":false,"languages":[]},"benefits":[],"hiring_locations":[{"name":"United Kingdom","iso":"GB","kind":"country"}],"hiring_excludes":[],"relocation_offered":false,"industries":["Bioinformatics","Venture Capital"],"lifecycle":[{"event":"open","at":"2026-10-06T00:40:22Z"}],"visa":[{"country":"GB","licensed_sponsor":true,"evidence":"Licensed UK visa sponsor (Skilled Worker, Senior or Specialist Worker)","filings_12m":null,"filings_prev_12m":null,"green_card_filings_12m":null,"median_offered_wage_usd":null,"route":"Skilled Worker; Global Business Mobility: Senior or Specialist Worker","cap_exempt":false,"checked_at":"2026-10-20T06:21:30+00:00","sources":["UK Home Office: register of licensed sponsors (workers)"],"filings_for_role_12m":0}],"liveness":{"score":90,"band":"hot","label":"Hiring now","p_open":1,"p_active":0.903,"p_room":1,"age_days":14,"expected_fill_days":63,"reasons":["conf:0","velocity","win:early"],"computed_at":"2026-10-20T05:45:00Z"},"pay":null,"html_url":"https://alion.io/job/flagship-pioneering-senior-machine-learning-scientist","json_url":"https://alion.io/job/flagship-pioneering-senior-machine-learning-scientist.json","meta":{"generated_at":"2026-10-20T21:59:56Z","cache_seconds":300,"methodology":"https://alion.io/methodology","terms":"https://alion.io/terms","contact":"https://alion.io/contact","api":"https://alion.io/developers","about":"Alion is a live layer of people, companies and AI agents: who they are, whether they are real and active right now, what they do and how to work with them, readable by people and by agents and paid per call.","catalog":"https://alion.io/catalog.json","usage":{"tier":"crawler_verified","counted_by":"address","units_charged":1,"used_today":25651,"day_limit":null,"remaining_today":null,"minute_limit":300,"resets_at":"2026-10-21T00:00:00Z"}},"offers":[{"id":"company.slices","title":"One company in depth, by slice","status":"live","price":{"credits":0.02,"usd":0.002,"plus_per_slice":{"credits":0.05,"usd":0.005}},"unit":"per company, plus each slice with data","note":"the employer in depth","call":{"mcp_tool":"get_company","arguments":{"id":8393},"rest":"https://alion.io/mcp/rest/get_company?id=8393"},"human":"https://alion.io/catalog?offer=company.slices&for=job%2Fflagship-pioneering-senior-machine-learning-scientist"},{"id":"market.stats","title":"A market slice: pay, demand and time to fill","status":"live","price":{"credits":1,"usd":0.1},"unit":"per slice","note":"pay, demand and time to fill for this role and place","call":{"mcp_tool":"market_stats"},"human":"https://alion.io/catalog?offer=market.stats&for=job%2Fflagship-pioneering-senior-machine-learning-scientist"},{"id":"job.search","title":"Open jobs by role, technology, place, pay and visa","status":"live","price":{"credits":0.02,"usd":0.002},"unit":"per posting in a list","note":"similar open postings","call":{"mcp_tool":"search_jobs"},"human":"https://alion.io/catalog?offer=job.search&for=job%2Fflagship-pioneering-senior-machine-learning-scientist"},{"id":"company.verify","title":"Is this company real and active right now","status":"pilot","price":null,"unit":"per company","request":{"url":"https://alion.io/catalog/request","method":"POST","body":"{\"offer\": \"company.verify\", \"for\": \"job/flagship-pioneering-senior-machine-learning-scientist\", \"note\": \"what you need it for\"}"},"human":"https://alion.io/catalog?offer=company.verify&for=job%2Fflagship-pioneering-senior-machine-learning-scientist"}]}