{"id":1261056,"url":"https://alion.io/job/manifold-bio-computational-scientist-assay-development","title":"Computational Scientist, Assay Development","company":{"id":1883364,"name":"Manifold Bio","domain":"manifold.bio","url":"https://alion.io/company/manifold-bio","size_band":"11-50","is_staffing_agency":false,"employer_type":"direct","is_intermediary":false,"listed_via":null,"ats_vendor":"Greenhouse","truth_index":{"grade":"B","score":75,"open_postings":5,"ghost_share":0,"stale_share":1,"repost_share":0,"time_to_fill_p50_days":null,"computed_at":"2026-10-10T05:45:15Z"}},"role":"Science & Research","role_family":"Science & Research","seniority":"middle","employment_type":null,"work_mode":"on_site","remote_scope":null,"remote_scope_basis":null,"remote_working_hours":null,"hiring_geo_confidence":"structured","locations":["Boston, United States"],"countries":["US"],"hiring_countries":[],"hiring_countries_total":0,"salary":{"min":118000,"max":138000,"currency":"USD","period":"year","gross":null,"usd_annual":138000},"salary_estimate":null,"experience_years_min":4,"visa_sponsorship":false,"relocation_package":false,"has_equity":true,"technologies":[{"name":"AI Agents","optional":false},{"name":"Machine Learning","optional":false},{"name":"Python","optional":false},{"name":"Unix","optional":false},{"name":"AWS","optional":true},{"name":"GCP","optional":true}],"status":"live","first_seen_at":"2026-05-04T15:08:11Z","employer_posted_date":"2026-08-10","last_verified_at":"2026-10-11T20:25:39Z","board_verified":true,"closed_at":null,"days_open":160,"trust":{"level":"stale","repost_count":0,"flags":["stale"],"days_open":159},"description":"Manifold Bio is a platform biotechnology company pioneering AI-guided protein design and massively multiplexed in vivo screening to unlock tissue-targeted medicines and organism-scale models of living systems. Using proprietary molecular barcoding technology, we screen hundreds of thousands of protein designs simultaneously in living systems, producing in vivo-validated datasets at a scale no one else can match. The datasets power our computational models, which leads to better drug designs, creating a flywheel that gets stronger with every campaign. Our team of protein engineers, biologists, and computational scientists works across this full stack to pursue programs both internally and with leading pharma companies.\nPosition\nManifold Bio is seeking an exceptional Computational Scientist to join our growing Quantitative Biology team. You will work closely with experimental scientists to design and analyze highly multiplexed protein library experiments. You will specifically be working with traditional phage and yeast display readouts, as well as other proprietary display data. You will be expected to own and independently advance projects in areas related to your deep expertise such as protein design, DNA library design, or machine learning/biophysical modeling from MPRA data. You will work closely with our Head of Platform and our other computational scientists to onboard new capabilities that advance the M-Design platform for data-driven engineering of drugs with desired properties.\nResponsibilities\nInvent new quantitative protein engineering assays working with experimental scientists\nBuild robust data pipelines with rich metrics and statistics for real-time dataset analysis and reporting\nPerform analysis and \"hit calling\" support, contributing new insights to active projects\nImprove library design workflows to best co-optimize antibody libraries for enhanced performance\nWrite and contribute robust code in shared libraries for common protein design tasks\nCollaborate on designing high-throughput experiments and analyze/interpret results from phage display (biopanning, phi-seq, in vivo) and yeast display platforms\nDeliver high-quality data reporting through slides and documentation for cross-functional teams\nProactively share findings with colleagues through excellent documentation and discussions\nRequired Qualifications\nPhD and/or 4+ years of equivalent experience in computational biology, bioinformatics, protein engineering, antibody engineering, or similar field working with biological sequences\nStrong understanding of statistics fundamentals and data analysis methodologies\nRich experience with Python, agentic coding, data pipeline development\nFamiliarity with version control, test-driven development, and Unix computing\nExperience with massively parallel reporter assays (MPRAs) and high-throughput screening data analysis\nExperience designing DNA libraries for binders, DMS, phage display, or equivalent high-throughput experiments\nExperience working with Next Generation Sequencing (NGS) data from library-based experiments\nOutstanding written and verbal communication skills for cross-functional collaboration\nPreferred Qualifications\nIndustry experience in antibody therapeutic development or biotechnology R&D\nTrack record of developing computational tools or pipelines adopted by experimental teams\nExperience mentoring junior scientists or leading cross-functional project teams\nPublications or patents in antibody engineering, protein design, or high-throughput screening methods\nFamiliarity with cloud computing platforms (AWS, GCP).\nStrong antibody engineering background with first-hand experience in antibody design, optimization, or discovery\nThis Role Might Be Perfect For You If\nYou thrive in collaborative environments where computational insights directly guide experimental decisions\nYou're energized by translating complex datasets into actionable recommendations for drug discovery teams\nYou enjoy building robust, production-quality tools that others rely on for critical decisions\nYou're passionate about the therapeutic potential of engineered antibodies and want to accelerate their development\nYou love working at the intersection of cutting-edge computational methods and innovative experimental platforms\nBase Salary Range: $118,000-138,000\nThis reflects the typical offer range for this role, based on experience, role scope, and internal equity. Final compensation decisions are made using a consistent leveling framework and consider the candidate’s experience, interview performance, and expected impact.\nThis role is eligible for:\nAnnual performance-based target bonus\nStock options\nComprehensive medical, dental, and vision coverage\n401(k) plan\nFlexible paid time off and holidays\nPerks including on-site gym, onsite lunch, and commuter support\nOur compensation ranges are reviewed annually to ensure alignment with market trends and internal equity.\nIf you’re excited to build a platform that combines these technologies to revolutionize how protein therapeutic discovery happens, please reach out to .\nWe value different experiences and ways of thinking and believe the most talented teams are built by bringing together people of diverse cultures, genders, and backgrounds.","description_format":"text","description_chars":5284,"description_truncated":false,"requirements":{"experience_years_min":4,"management_years_min":null,"team_size_min":null,"manages_managers":false,"education":{"level":"phd","optional":false},"security_clearance":false,"languages":[]},"benefits":["Equity","Stock options"],"hiring_locations":[],"hiring_excludes":[],"relocation_offered":false,"industries":["Drug Discovery","Artificial Intelligence","Biologics & Biosimilars","Recommendation Systems"],"lifecycle":[{"event":"open","at":"2026-09-25T20:34:59Z"}],"visa":[],"liveness":{"score":5,"band":"cold","label":"Long shot","p_open":1,"p_active":0.19,"p_room":0.28,"age_days":158,"expected_fill_days":28,"reasons":["conf:1","win:tail","crowd:"],"computed_at":"2026-10-10T05:45:15Z"},"pay":{"stated_usd_annual":138000,"is_top_pay":true},"html_url":"https://alion.io/job/manifold-bio-computational-scientist-assay-development","json_url":"https://alion.io/job/manifold-bio-computational-scientist-assay-development.json","meta":{"generated_at":"2026-10-11T23:24:05Z","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":14319,"day_limit":null,"remaining_today":null,"minute_limit":300,"resets_at":"2026-10-12T00:00:00Z"}},"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":1883364},"rest":"https://alion.io/mcp/rest/get_company?id=1883364"},"human":"https://alion.io/catalog?offer=company.slices&for=job%2Fmanifold-bio-computational-scientist-assay-development"},{"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%2Fmanifold-bio-computational-scientist-assay-development"},{"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%2Fmanifold-bio-computational-scientist-assay-development"},{"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/manifold-bio-computational-scientist-assay-development\", \"note\": \"what you need it for\"}"},"human":"https://alion.io/catalog?offer=company.verify&for=job%2Fmanifold-bio-computational-scientist-assay-development"}]}