---
title: 'Senior/ Staff Bioinformatics Engineer, Clinical Applications at Helix'
canonical: 'https://feeny.ai/job/senior-staff-bioinformatics-engineer-clinical-applications-helix-united-states-g2hqy5cttng2'
type: 'job'
last_seen: '2026-10-27'
---

# Senior/ Staff Bioinformatics Engineer, Clinical Applications at Helix

- **Company:** Helix
- **Location:** United States
- **Compensation:** $134k–$219k
- **Employment:** full-time
- **Work type:** remote
- **Posted:** 2026-10-20
- **Last confirmed live:** 2026-10-27
- **Apply:** https://jobs.gem.com/helix/am9icG9zdDrC33XO8qn5hCbryRhPGj-F

## Job description

## Who We Are & What We Do

At Helix, our mission is simple: to help everyone improve their lives through their DNA.

Ready to make a real-world impact with your skills? At Helix, we're transforming healthcare by making genomics a standard of care. We partner with health systems and life science companies to accelerate the integration of genomic data into clinical practice. Join us in building a future where healthcare is personalized, proactive, and powered by genomics.

What is special about this role? You'll bridge the gap between genomic variants and the clinical answers that help patients act on their DNA. You'll partner with scientists and product leaders to turn promising prototypes into production systems that scale. Your code will power how Helix automates gene and variant curation for real patients. We have openings for both Senior and Staff level Engineers. You may apply at either level, and we’ll consider your experience, qualifications and demonstrated scope when determining the right level.

As a Senior/Staff Bioinformatics Engineer, Clinical Applications, you will:

- 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.

About you:

- 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.

Pluses:

- 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 Interview Process:

1. Recruiter Screen 2) Manager Screen/Tech Screen 3) Onsite 4) Offer

Expected Pay For This Role: There are 3 distinct parts to your Helix offer: 1) Base Salary 2) Annual Bonus 3) Equity

- 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.

Aside from working alongside brilliant, dedicated, passionate, down-to-earth, curious, warm, and thoughtful people, we also provide great benefits:

- 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

What To Expect During Your First 90 days:

- 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.

To learn how Helix collects, uses, and protects your personal information during the recruitment process, please review our[Privacy Notice](https://www.helix.com/privacy-policy).

Helix is proud to be an equal opportunity employer, and committed to providing employment opportunities regardless of race, religious creed, color, national origin, ancestry, physical disability, mental disability, medical condition, genetic information, marital status, sex, gender, gender identity, gender expression, pregnancy, childbirth and breastfeeding, age, sexual orientation, military or veteran status, or any other protected classification, in accordance with applicable federal, state, and local laws.

#LI-Remote

## About Helix

## Company Overview
- **One-liner**: Helix is a population genomics company that integrates DNA insights into clinical care, research, and therapeutic development at scale.
- **Entity Type**: Private (Grant stage; $283.9M total funding)
- **Headquarters**: San Mateo, California, United States
- **Founded**: 2015
- **Founders**: Not publicly listed on major sources (founded as HELIX HOLDINGS I, LLC)

## Core Business
- **Primary Industry**: Healthcare technology / Population genomics / Precision medicine
- **Target Customers**: Health systems, life sciences companies, health plans, and payers (B2B); also provides patient-facing genetic testing (B2C/D2C)
- **Mission**: “To empower every person to improve their life through their DNA.”

## Products & Services
- **Population Genomics Platform**: A Sequence Once, Query Often™ model enabling health systems to uncover genetic risk efficiently and integrate insights at the point of care. Includes clinical decision support, EHR integration, and patient engagement tools.
- **Genetic Testing Services**: Seamless test ordering for clinicians, with results integrated into clinical workflows. Covers diagnostic and screening applications.
- **Helix Research Network®**: A large-scale network connecting real-world genomic data from health systems and life sciences partners to accelerate discovery and drug development.

## Market Standing
- **Valuation**: Not publicly disclosed
- **Total Funding**: $283.9M raised to date (latest round: Grant - II, $900K, ~5 years ago)
- **Notable Investors**: Kleiner Perkins, Warburg Pincus, Temasek, DFJ Growth Fund, The Rockefeller Foundation, and 7 others
- **Key Customers/Partners**: Renown Health, Mayo Clinic, Medical University of South Carolina
- **Growth Signals**: 162 patents filed; operating at the intersection of clinical care and research; population-scale programs showing cost-effectiveness (per internal models); active in large health system deployments

## Competitive Advantages
- **Sequence Once, Query Often™ model**: A proprietary approach that reuses genomic data across multiple clinical and research use cases, reducing cost and friction.
- **Integrated platform**: Combines lab testing, clinical decision support, EHR integration, and research network into one cohesive offering—hard for competitors to replicate.
- **Proven health system partnerships**: Deployments with leading institutions like Mayo Clinic and Renown Health provide real-world validation and a defensible moat.
- **Patent portfolio**: 162 patents covering molecular biology, genetics, and bioinformatics.

## Strategic Focus
- Scaling population genomics programs across more health systems and payers
- Deepening integration with EHRs and clinical workflows to drive adoption
- Expanding the Helix Research Network to generate more real-world evidence
- Demonstrating cost-effectiveness and ROI to health plans to drive reimbursement

## Why Work Here
- **Mission-driven**: Directly contributing to improving lives through DNA—translating complex genomics into actionable health insights.
- **Collaborative culture**: Described as “curious and passionate,” with a focus on transparency, collaboration, and empowerment across science, engineering, design, and marketing.
- **Interdisciplinary team**: Genomics scientists, engineers, product developers, and researchers working together—no PhD required to geek out on genomics.
- **Growth stage company**: Private with significant funding and major partnerships, offering the excitement of a scale-up with real impact.
- **Location**: San Mateo, CA (Bay Area); customer support hours are Pacific time.
- **No explicit remote/hybrid policy found**, but standard tech company culture likely applies.

## Sources
1. [helix.com](https://www.helix.com/)
2. [helix.com/careers](https://www.helix.com/company/careers)
3. [helix.com/about](https://www.helix.com/v2/about)
4. [helix.com/our-team](https://www.helix.com/company/our-team)
5. [cbinsights.com](https://www.cbinsights.com/company/helix)

## Other roles at Helix

- [Customer Service Representative (Contractor)](https://feeny.ai/job/customer-service-representative-contractor-helix-united-states-hyyjm19ppg5c) — United States
- [Staff Bioinformatics Scientist, Clinical Applications](https://feeny.ai/job/staff-bioinformatics-scientist-clinical-applications-helix-united-states-bevyc2fhka1k) — United States
- [Senior Product Manager, Science](https://feeny.ai/job/senior-product-manager-science-helix-united-states-rmmtfptp60qt) — United States
- [Clinical Laboratory Technician I](https://feeny.ai/job/clinical-laboratory-technician-i-helix-san-diego-8weter1pmaeh) — San Diego, CA
- [Senior Analyst, Financial Planning & Analysis](https://feeny.ai/job/senior-analyst-financial-planning-analysis-helix-united-states-vxftk0v0yebp) — United States
- [VP, Business Development, Health Plan Partnerships](https://feeny.ai/job/vp-business-development-health-plan-partnerships-helix-united-states-024dpmgcrs5k) — United States
- [Staff Bioinformatics Scientist](https://feeny.ai/job/staff-bioinformatics-scientist-helix-united-states-724sdw5mmmwv) — United States
- [Head of Pharmacogenomics (PGx)](https://feeny.ai/job/head-of-pharmacogenomics-pgx-helix-united-states-6fwa0e1m9n4z) — United States
- [Senior Software Engineer, Data Experiences](https://feeny.ai/job/senior-software-engineer-data-experiences-helix-mexico-sqkbmrf364ze) — Mexico
- [Staff Software Engineer - Experience](https://feeny.ai/job/staff-software-engineer-experience-helix-united-states-g93tq9d9a67a) — United States