{"id":3017419,"url":"https://alion.io/job/quantum-si-senior-scientist-systems-integration","title":"Senior Scientist, Systems Integration","company":{"id":689284,"name":"Quantum-Si","domain":"quantumsi.ai","url":"https://alion.io/company/quantumsi","size_band":"51-200","is_staffing_agency":false,"employer_type":"direct","is_intermediary":false,"listed_via":null,"ats_vendor":"Greenhouse","truth_index":null},"role":"Science & Research","role_family":"Science & Research","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":["San Diego, United States"],"countries":["US"],"hiring_countries":[],"hiring_countries_total":0,"salary":{"min":135000,"max":155000,"currency":"USD","period":"year","gross":null,"usd_annual":155000},"salary_estimate":null,"experience_years_min":3,"visa_sponsorship":true,"relocation_package":false,"has_equity":true,"technologies":[{"name":"CAPA","optional":false},{"name":"Confluence","optional":false},{"name":"Design Controls","optional":false},{"name":"Design of Experiments","optional":false},{"name":"FMEA","optional":false},{"name":"Jira","optional":false},{"name":"JMP","optional":false},{"name":"MATLAB","optional":false},{"name":"Minitab","optional":false},{"name":"Next-Generation Sequencing","optional":false},{"name":"Python","optional":false},{"name":"Verification & Validation","optional":false}],"status":"live","first_seen_at":"2026-10-21T15:12:38Z","employer_posted_date":"2026-10-21","last_verified_at":"2026-10-23T07:52:13Z","board_verified":true,"closed_at":null,"days_open":1,"trust":{"level":"ok","repost_count":null,"flags":[],"days_open":1},"description":"Quantum-Si is seeking a Senior Systems Integration Scientist to drive integration, characterization, and troubleshooting for Proteus, our next-generation single-molecule protein sequencing platform. This role investigates performance issues across samples, reagents, surface chemistry, consumables, fluidics, instrumentation, and sequencing workflows. The successful candidate will use hands-on experimentation, statistical design, root-cause analysis, and system-level thinking to improve product performance, reproducibility, robustness, and customer readiness. \nAs part of our team, your core responsibilities will be: \nScientific Systems Integration and Characterization: \nDesign and execute system-level studies to identifycritical parameters, interaction effects, operating ranges, and sources of variability across samples, reagents, surface chemistry, consumables, materials, fluidics, instrument conditions, and sequencing workflows. \nSurface Chemistry and Material Interface Characterization: \nInvestigate surface and material interactions affecting sample loading, biomolecule immobilization, reagent activity, background, signal quality, and sequencing performance. \nPartner with Surface Chemistry and Consumables teams to characterize material compatibility, adsorption, contamination, surface variability, and manufacturing or environmental effects and translate findings into product improvements. \nReagent and Sample Stability \nDesign and execute on-board, off-board, accelerated, and stress studies to characterize sample and reagent stability under customer-relevant storage and operating conditions. \nIdentifydegradation mechanisms and establishscientifically supported storage, handling, hold-time, and operating recommendations while differentiating sample, reagent, consumable, chip, surface, and instrument effects. \nExperimental Design and Statistical Analysis: \nDesign statistically rigorous experiments, including multifactor DOE, with appropriate controlsand acceptance criteria to identifycritical variables, interaction effects, failure thresholds, and optimaloperating conditions. \nAnalyze complex experimental and sequencing datasets using JMP, Python, R, MATLAB, or equivalent tools and clearly communicate performance trends, variability, scientific risk, conclusions, and recommendations. \nCross-Functional Scientific Leadership: \nLead cross-functional investigations with Surface Chemistry, Reagent Development, Applications, Consumables, Engineering, Software, Quality, Manufacturing, Operations, and Customer Success, translating system-level observations into focused studies, integration strategies, and evidence-based conclusions. \nTest Method and Protocol Development: \nDevelop reproducible experimental protocols, characterization plans, test methods, controls, acceptance criteria, analysis methods, and troubleshooting workflows that support rigorous investigations and defensible technical conclusions. \nSystem Verification, Validation, and Reliability: \nDesign and execute V&V, characterization, robustness, reliability, and regression studies demonstratingthat integrated sample, reagent, consumable, surface, and workflow performance meetssystem requirements. \nInvestigate deviations, outliers, and emerging performance trends and contribute scientific evidence to risk assessments, failure-mode analyses, mitigations, and product decisions. \nCustomer-Relevant Workflow Evaluation: \nEvaluate sequencing performance under customer-relevant samples, workflows, environmental conditions, timing, and operator interactions. Investigate field issues involving sample quality, reagent handling, consumables, surface chemistry, environmental exposure, or integrated workflows, and translate findings into practical product and troubleshooting recommendations. \nTechnical Documentation and Communication \nAuthor experimental plans, protocols, technical reports, investigation summaries, risk assessments, and scientifically justified recommendations with appropriate technicalrigor and traceability. \nCommunicate complex scientific findings, evidence, risks, decisions, and recommendations clearly to technical teams, cross-functional stakeholders, and leadership. \nQualifications: \nPh.D. in biochemistry, chemistry, chemical engineering, biomedical engineering, bioengineering, molecular biology, materials science, biophysics, polymer science, analytical chemistry, or a related discipline with relevant 3-5 years industry experience; or an M.S./B.S. with substantial equivalent industry experience. \nStrong scientific foundation in protein chemistry, biochemistry, analytical chemistry, surface chemistry, biomaterials, reagent formulation, molecular assays, biosensors, or chip-based assays, with demonstratedexperience integrating or troubleshooting assays, reagents, samples, materials, consumables, or automated life-science instrumentation. \nDemonstrated ability to lead structured root-cause investigations, develop hypotheses, design controlledexperiments, interpret complex results, and make evidence-based technical recommendations involving biological, chemical, material, or instrument interactions. \nExperience with design of experiments and statistical analysis using JMP, Python, R, MATLAB, Minitab, or equivalent tools. \nKnowledge of sample and reagent stability, material compatibility, surface interactions, contamination controls, environmental robustness, or accelerated-stabilitytesting. \nExperience developing experimental protocols, test methods, acceptance criteria, controls, and technical reports. \nAbility to analyze system-level datasets and relate scientific variables to integrated instrument or product performance. \nHands-on laboratory experience with biological samples, reagents, consumables, prototype systems, and automated instrumentation, with the ability to manage multiple workstreams independently and collaborate effectively across scientific and engineering teams. \nStrong technical communication skills and the ability to explain complex scientific findings to multidisciplinary audiences. \nDetail-oriented, objective, and rigorous approach to experimentation, data interpretation, and documentation. \nTravel requirement of up to 20 percent, including overnight and occasional international travel \nPreferredqualifications: \nExperience with proteomics, protein sequencing, next-generation sequencing, single-molecule detection, fluorescence-based detection, biosensors, sensor arrays, silicon photonics, or chip-based analytical platforms. \nExperience with protein immobilization, surface functionalization, nonspecific adsorption, biofunctionalcoatings, biomolecule-surface interactions, and the evaluation of plastics, foils, polymers, adhesives, elastomers, metals, or other materials that contact biological samples or reagents. \nExperience with reagent formulation, buffers, enzymes, proteins, peptides, labeling chemistries, stabilizers, preservatives, or other biologically active materials. \nExperience designing accelerated and real-time stability studies; investigating sample or reagent degradation, background, loss of activity, contamination, evaporation, and time-dependent performance changes; and establishingscientifically justified storage, handling, and operating-time recommendations. \nExperience with microfluidics, fluid handling, liquid handling, thermal workflows, incubation control, low-volume sample handling, or automated biological workflows. \nExperience using microscopy, fluorescence measurements, spectroscopy, imaging, surface-characterization methods, or other analytical techniques to investigate system-performance issues. \nExperience with verification and validation, product characterization, reliability testing, design controls, FMEA, CAPA, risk assessment, deviation investigations, commercialization, product transfer, manufacturing investigations, reliability growth, field issue resolution, or customer-facing technical escalations. \nExperience working under quality-system expectations, including good documentation practices, controlled protocols, issue tracking, and traceable technical decision-making. \nFamiliarity with Jira, Confluence, requirements-management systems, laboratory information systems, or structured experimental-datarepositories. \nExperience working in a start-up, rapidly evolving product-development organization, or cross-functional matrix environment. \nCompensation and Benefits \nThe estimated base salary range for this position in the United States is $135,000 - $155,000. In addition to base salary, full-time employees are eligible to participate in Quantum-Si's discretionary annual bonus program and may receive equity awards as part of the total compensation package. Actual compensation will be determined based on a variety of factors, including, but not limited to, the position level, relevant skills, knowledge, experience, qualifications, geographic location, internal equity, and market data. \nQuantum-Si also offers a competitive benefits package designed to support employees' health, well-being, work-life balance, and family needs. Benefits include: \nComprehensive medical, dental, and vision insurance coverage \nHealth Savings Account (HSA) and Flexible Spending Account (FSA) options, where applicable \nCompany-paid life and accidental death & dismemberment (AD&D) insurance \nShort-term and long-term disability coverage \nEmployee Assistance Program (EAP) resources to support personal and professional well-being \nDiscretionary paid time off and company-paid holidays \nParental leave to support employees welcoming and caring for a new child \n401(k) retirement savings plan with both pre-tax and Roth contribution options \nAdditional Information \nCandidates must be authorized to work in the United States. Quantum-Si does not provide employment-based immigration sponsorship of any kind for this position, including support for applicants currently pursuing permanent residency (Green Card sponsorship). \nQuantum-Si does not accept unsolicited agency resumes. \nQuantum-Si is an E-Verify and equal opportunity employer regardless of race, color, ancestry, religion, gender, national origin, sexual orientation, age, citizenship, marital status, disability or Veteran status. All your information will be kept confidential according to EEO guidelines.","description_format":"text","description_chars":10328,"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":["Equity","Insurance coverage","Parental leave","Retirement plans","Vision insurance"],"hiring_locations":[{"name":"United States","iso":"US","kind":"country"}],"hiring_excludes":[],"relocation_offered":false,"industries":["Laboratory Equipment"],"lifecycle":[{"event":"open","at":"2026-10-21T16:57:29Z"}],"visa":[{"country":"US","licensed_sponsor":true,"evidence":"H-1B filings in 12 months: 1","filings_12m":1,"filings_prev_12m":2,"green_card_filings_12m":0,"median_offered_wage_usd":157500,"route":null,"cap_exempt":false,"checked_at":"2026-10-15T11:24:14+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":1,"expected_fill_days":36,"reasons":["conf:2","win:early"],"computed_at":"2026-10-23T05:54:15Z"},"pay":{"stated_usd_annual":155000,"is_top_pay":false},"html_url":"https://alion.io/job/quantum-si-senior-scientist-systems-integration","json_url":"https://alion.io/job/quantum-si-senior-scientist-systems-integration.json","meta":{"generated_at":"2026-10-23T07:56:47Z","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":12744,"day_limit":null,"remaining_today":null,"minute_limit":300,"resets_at":"2026-10-24T00:00:00Z"}},"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":689284},"rest":"https://alion.io/mcp/rest/get_company?id=689284"},"human":"https://alion.io/catalog?offer=company.slices&for=job%2Fquantum-si-senior-scientist-systems-integration"},{"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%2Fquantum-si-senior-scientist-systems-integration"},{"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%2Fquantum-si-senior-scientist-systems-integration"},{"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/quantum-si-senior-scientist-systems-integration\", \"note\": \"what you need it for\"}"},"human":"https://alion.io/catalog?offer=company.verify&for=job%2Fquantum-si-senior-scientist-systems-integration"}]}