Bioinformatics Developer

Role Overview

Design, develop, and implement end-to-end molecular testing data integration pipelines for a major health system. Focus on harmonizing multi-vendor genomic data from clinical molecular testing platforms and building automated data transformation pipelines.

Key Responsibilities

• Design and develop bioinformatics pipelines for genomic data processing
• Build data harmonization pipelines for multi-vendor clinical molecular testing data
• Create automated data transformation pipelines to load standardized datasets into cBioPortal, OMOP Genomics Extensions, and other analytics platforms
• Create and maintain CI/CD pipelines with Kubernetes or similar tools
• Apply software engineering best practices to bioinformatics development

Requirements

• 5+ years of hands-on experience developing bioinformatics pipelines for genomic data processing
• Master's degree in bioinformatics, Computational Biology, Computer Science, or related field
• Proven experience building data harmonization pipelines for multi-vendor clinical molecular testing data
• Extensive experience creating and maintaining CI/CD pipelines with Kubernetes or similar tools
• Strong Python scripting experience
• Deep domain expertise in cancer genomics, clinical molecular testing, and bioinformatics data standards

Nice-to-Haves

• PhD degree
• Java experience for cBioPortal backend customization
• Knowledge of statistical analysis tools (R, Python pandas/scipy) for biomarker analysis