{"id":3980582,"url":"https://alion.io/job/abiologics-senior-machine-learning-scientist","title":"(Senior) Machine Learning Scientist","company":{"id":670571,"name":"Abiologics","domain":"abiologics.com","url":"https://alion.io/company/abiologics","size_band":"51-200","is_staffing_agency":false,"employer_type":"direct","is_intermediary":false,"listed_via":null,"ats_vendor":"Greenhouse","truth_index":null},"role":"AI/ML","role_family":"AI/ML","seniority":"senior","employment_type":null,"work_mode":"on_site","remote_scope":null,"remote_scope_basis":null,"remote_working_hours":null,"hiring_geo_confidence":"explicit","locations":["Watertown, United States"],"countries":["US"],"hiring_countries":[],"hiring_countries_total":0,"salary":{"min":132000,"max":258500,"currency":"USD","period":"year","gross":null,"usd_annual":258500},"salary_estimate":null,"experience_years_min":3,"visa_sponsorship":false,"relocation_package":false,"has_equity":false,"technologies":[{"name":"Machine Learning","optional":false},{"name":"Python","optional":false},{"name":"PyTorch","optional":false}],"status":"live","first_seen_at":"2026-11-09T18:48:22Z","employer_posted_date":"2026-11-09","last_verified_at":"2026-11-09T19:35:33Z","board_verified":true,"closed_at":null,"days_open":0,"trust":{"level":"ok","repost_count":null,"flags":[],"days_open":0},"description":"Company Overview:\nAbiologics, Inc. is a privately held, early-stage biotechnology company on a mission to make biology better through an innovative therapeutic modality. We are pioneering the development of SynteinsTM, a transformational class of macromolecular medicines unlocked by novel synthetic and computational technologies. Abiologics is actively seeking exceptional molecular scientists who are passionate about driving therapeutic modality innovation in biotechnology.\nAbiologics was founded in Flagship Pioneering’s venture creation engine, where companies such as Moderna Therapeutics (NASDAQ: MRNA) and Generate Biomedicines were conceived and created. Since Flagship’s founding in 2000, the firm has originated and fostered the development of more than 100 scientific ventures resulting in more than 500 issued patents and more than 50 clinical trials for novel therapeutic agents.\nAbout the role:\nWe are hiring a Machine Learning Scientist to train, validate and ship the predictive models that power our molecular design platform. You will build models that score chemical molecules for developability (ADMET), potency, synthesizability and 3D structure, working alongside chemists, biologists and platform engineers.\nIn your first year, success means two or three models in production use by project teams, each with documented benchmarks, calibrated uncertainty and a clear applicability domain.\nWhat you will do:\nTrain and maintain ML models for ADMET and developability endpoints such as solubility, permeability, metabolic stability, toxicity and aggregation risk.\nBuild potency and binding models (QSAR, ligand- and structure-based) to rank and prioritize molecules against targets.\nDevelop synthesizability models: synthetic accessibility scoring, reaction-outcome prediction and retrosynthesis-informed filters.\nApply and fine-tune structure-aware models (GNNs, equivariant networks, protein-ligand structure and docking-informed ML).\nCurate and clean assay data, define scaffold- or time-split benchmarks, and quantify uncertainty and applicability domain.\nPackage models for the platform with engineers: versioned, reproducible and monitored for drift.\nPresent results and limits of each model to chemists and project teams, and incorporate their feedback into retraining.\nWhat you bring:\nPhD in computational chemistry, cheminformatics, machine learning or a related field, or an MS plus equivalent industry experience (about 3-6 years of hands-on modeling).\nDemonstrated experience training and validating ML models on chemical or molecular data, in industry or academia, with shipped or published results.\nDirect experience with at least two of: ADMET/developability, potency/binding, synthesizability/retrosynthesis, protein or ligand structure.\nFluency with molecular representations (fingerprints, descriptors, graphs, 3D) and tools such as RDKit.\nStrong Python and a deep learning framework (PyTorch preferred); experience with GNNs or transformers on molecules.\nRigorous evaluation habits: scaffold or temporal splits, baselines, noisy-label handling and uncertainty estimation.\nClear communication with chemists and biologists.\nNice to have:\nPublications, open-source contributions or competition results in molecular ML.\nExperience with generative design, active learning or Bayesian optimization loops.\nExperience with large-scale training, MLOps and model serving.\nFamiliarity with docking, free-energy methods or protein structure prediction tools.\nExperience working with biologics or non-small-molecule modalities.\nMore About Flagship Pioneering\nFlagship Pioneering is a biotechnology company that invents and builds platform companies, each with the potential for multiple products that transform human health or sustainability. Since its launch in 2000, Flagship has originated and fostered more than 100 scientific ventures, resulting in more than $90 billion in aggregate value. Many of the companies Flagship has founded have addressed humanity’s most urgent challenges: vaccinating billions of people against COVID-19, curing intractable diseases, improving human health, preempting illness, and feeding the world by improving the resiliency and sustainability of agriculture. Flagship has been recognized twice on FORTUNE’s “Change the World” list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies, and has been twice named to Fast Company’s annual list of the World’s Most Innovative Companies. Learn more about Flagship at www.flagshippioneering.com.\nFlagship Pioneering and our ecosystem companies 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.\nAt Flagship, we recognize there is no perfect candidate. If you have some of the experience listed above but not all, please apply anyway. Experience comes in many forms, skills are transferable, and passion goes a long way. We are dedicated to building diverse and inclusive teams and look forward to learning more about your unique background.\nRecruitment & Staffing Agencies: Flagship Pioneering and its affiliated Flagship Lab companies (collectively, “FSP”) do not accept unsolicited resumes from any source other than candidates. The submission of unsolicited resumes by recruitment or staffing agencies to FSP or its 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 . \nThe salary range for this role is $132,000 - $258,500. Compensation for the role will depend on a number of factors, including a candidate’s qualifications, skills, competencies, and experience. Abiologics, Inc currently offers healthcare coverage, annual incentive program, retirement benefits and a broad range of other benefits. Compensation and benefits information is based on Abiologics, Inc's good faith estimate as of the date of publication and may be modified in the future.\nPrivacy Notice for Applicants: When you apply for a role at Abiologics, a Flagship Pioneering portfolio company, 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":8023,"description_truncated":false,"requirements":{"experience_years_min":3,"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":["Biotechnology","Synthetic Biology","Biologics & Biosimilars"],"lifecycle":[{"event":"open","at":"2026-11-09T19:35:33Z"}],"visa":[{"country":"US","licensed_sponsor":true,"adverts_offering_sponsorship_24m":0,"sanctioned_now":false,"evidence":"H-1B filings in 12 months: 1","filings_12m":1,"filings_prev_12m":0,"green_card_filings_12m":0,"median_offered_wage_usd":97500,"route":null,"cap_exempt":false,"checked_at":"2026-11-09T07:32:21+00:00","sources":["US Department of Labor: LCA disclosure data (H-1B, H-1B1, E-3)"],"filings_for_role_12m":0}],"liveness":{"score":86,"band":"hot","label":"Hiring now","p_open":1,"p_active":0.86,"p_room":1,"age_days":0,"expected_fill_days":36,"reasons":["conf:1","win:early"],"computed_at":"2026-11-09T21:17:35Z"},"pay":{"stated_usd_annual":258500,"is_top_pay":true},"html_url":"https://alion.io/job/abiologics-senior-machine-learning-scientist","json_url":"https://alion.io/job/abiologics-senior-machine-learning-scientist.json","meta":{"generated_at":"2026-11-09T21:17:35Z","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":9534,"day_limit":null,"remaining_today":null,"minute_limit":300,"resets_at":"2026-11-10T00:00:00Z"}},"offers":[{"id":"company.slices","title":"One company in depth, by slice","status":"live","price":{"credits":0.1,"usd":0.01,"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":670571},"rest":"https://alion.io/mcp/rest/get_company?id=670571"},"human":"https://alion.io/catalog?offer=company.slices&for=job%2Fabiologics-senior-machine-learning-scientist"},{"id":"market.stats","title":"A market slice: pay, demand and time to fill","status":"live","price":{"credits":2,"usd":0.2},"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%2Fabiologics-senior-machine-learning-scientist"},{"id":"job.search","title":"Open jobs by role, technology, place, pay and visa","status":"live","price":{"credits":0.1,"usd":0.01},"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%2Fabiologics-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/abiologics-senior-machine-learning-scientist\", \"note\": \"what you need it for\"}"},"human":"https://alion.io/catalog?offer=company.verify&for=job%2Fabiologics-senior-machine-learning-scientist"}],"agent":{"mcp":"https://alion.io/mcp/jobs","mcp_open":"https://alion.io/mcp/open","next":[{"tool":"get_job","arguments":{"id":3980582}},{"tool":"search_jobs","arguments":{"company":"abiologics.com","detail":"compact"}},{"tool":"match_people","arguments":{"job_id":3980582},"note":"people open to offers who fit this vacancy"}],"note":"The same data through MCP tools: https://alion.io/mcp/open needs no sign-in (compact searches, postings, people); https://alion.io/mcp with an Alion account has everything. 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