Senior/ Staff Bioinformatics Engineer, Clinical Applications

Location: United States - Remote

Department: Bioinformatics

Location Type: REMOTE

Employment Type: FULL_TIME

• Productionize curation workflows that support both classical and modern AI/ML approaches to variant classification.
• Automate evidence integration from sources such as ClinVar, gnomAD, and PubMed.
• Collaborate closely with scientists, product, and clinical stakeholders to ensure software solutions meet scientific and product requirements.
• Direct AI coding agents to accelerate development of curation pipelines, applying engineering judgment to validate correctness, security, and architectural fit before deployment.
• At Senior level, own defined projects end to end, make technical decisions within agreed priorities and architecture, and raise trade-offs that affect broader systems.
• At Staff level, independently frame ambiguous problems, set technical direction, and make consequential architecture and prioritisation decisions across the product area.

• Bachelor's degree in Science or related field with 7+ years (Senior) or 9+ years (Staff) of professional software development experience. Or, a Master's or Ph.D. with 3+ years (Senior) or 5+ years (Staff) of professional software development experience.
• Advanced proficiency in production-quality Python, relational databases, and cloud platforms such as AWS.
• Experience productionizing and scaling AI/ML software, especially agentic systems built with frameworks such as LangChain or LangGraph.
• Experience collaborating with scientists to integrate bioinformatics/NGS tools and databases into production workflows.
• Strong judgment evaluating AI-generated code and pipeline logic for correctness, security, and maintainability before it reaches production.

• Experience in clinical genomics, such as ACMG guidelines, clinical diagnostics, or Human Phenotype Ontology (HPO) terms.
• Experience developing regulated software, such as software as a medical device.
• At Staff level, the role may have the opportunity to take on people leadership responsibilities. Experience mentoring or managing others, or an interest in developing as a people leader, is a plus.

• Expected Helix Base: $161,500 - $219,625 (Staff)
• Expected Helix Base: 134,000 - $179,000 (Senior)
• Expected Helix Discretionary Annual Bonus: 15% (Staff)/ 10% (Senior)of your annual salary
• Equity: We offer generous equity at Helix. If you receive a Helix offer your recruiter will book dedicated time with you to educate you on our equity model.

• Comprehensive Health Insurance with Date of Hire eligibility 
  • Above average employer paid premium coverage 
• 12 weeks Helix Paid Parental Leave option 
• 401(k) with employer matching of up to 3% and 100% Vesting on the Date of Hire
• Comprehensive Well-Being Benefits 
• Flexible PTO
• Remote options for many roles and a home office stipend 

• First 30 days: you’ll spend time learning the Helix way, completing training and onboarding for your roles, and getting introduced to your team and relevant stakeholders. You’ll also gain a deeper understanding of our customers, our products, the impact we make in the lives of our communities, and how to thrive at Helix through participation in Helix U.
• Day 30 - 60: you’ll spend time contributing to projects, deeply familiarizing yourself with team and company processes, and developing a deeper understanding of Helix’s products, services and capabilities. 
• Day 60 - 90: you’ll build your OKRs with your manager, start to take ownership of projects and initiatives on your team, and begin to demonstrate your impact on the Helix mission.