Senior Bioinformatics Engineer

Senior Bioinformatics Engineer at Natera

Natera is a global leader in cell-free DNA (cfDNA) testing with a focus on women's health, oncology, and organ health. To bolster our oncology products, we are looking for a Senior Bioinformatics Engineer to provide technical expertise and process completion. Through collaboration between the product and development teams, the Senior Bioinformatics Engineer will help complete projects for the array of Oncology bioinformatics pipelines.

Responsibilities

• Develop, maintain, and scale production-grade bioinformatics pipelines
• Lead the translation of validated research workflows into scalable, automated, cloud-based production systems
• Architect and drive automation initiatives to improve pipeline scalability, reliability, reproducibility, and turnaround time (TAT)
• Design and oversee secure, high-throughput data transfer solutions across AWS accounts
• Proactively identify bottlenecks and implement performance and cost optimizations
• Contribute to long-term roadmap planning for automation and production pipeline evolution

Minimum Qualifications

• Master’s degree in Bioinformatics, Computational Biology, Computer Science, or related quantitative field
• 5+ years of experience developing and operating bioinformatics or large-scale data processing pipelines in production environments
• Strong proficiency in a production programming language (e.g., Python)
• Extensive experience working in AWS or comparable cloud platforms
• Proven ability to design scalable, automated systems with minimal manual intervention
• Demonstrated experience owning automated pipelines end-to-end, including debugging across data, application, and infrastructure layers

Knowledge, Skills, And Abilities

• Deep expertise with workflow orchestration tools (e.g., WDL, Nextflow, Snakemake)
• Strong experience with Docker and containerized execution at scale
• Advanced knowledge of AWS services such as S3, EC2, AWS Batch, Airflow, and IAM, including multi-account architectures
• Experience leading automation efforts and driving technical improvements across teams
• Experience handling large genomic datasets
• Strong understanding of software engineering best practices, including CI/CD, unit testing, and test-driven development
• Excellent communication skills and ability to influence technical direction across scientific and engineering stakeholders
• Team player, self-motivated and detail oriented are essential

Our Opportunity

Natera™ is a global leader in cell-free DNA (cfDNA) testing, dedicated to oncology, women’s health, and organ health. Our aim is to make personalized genetic testing and diagnostics part of the standard of care to protect health and enable earlier and more targeted interventions that lead to longer, healthier lives.

The Natera team consists of highly dedicated statisticians, geneticists, doctors, laboratory scientists, business professionals, software engineers and many other professionals from world-class institutions, who care deeply for our work and each other. When you join Natera, you’ll work hard and grow quickly. Working alongside the elite of the industry, you’ll be stretched and challenged, and take pride in being part of a company that is changing the landscape of genetic disease management.

What We Offer

• Competitive Benefits: Comprehensive medical, dental, vision, life, and disability plans.
• Free Testing & Fertility Care: Natera employees and families receive free testing and fertility benefits.
• Work-Life Balance: Pregnancy and baby bonding leave, 401k, commuter benefits.
• Referral Program: Generous employee referral program.

Key skills/competency

• Bioinformatics Pipeline Development
• Cloud Automation
• AWS Architecture
• Genomic Data Processing
• Workflow Orchestration
• Python Programming
• Docker Containerization
• CI/CD Practices
• Scalable Systems Design
• Performance Optimization