Bioinformatics Scientist​/Engineer

Position Title: Bioinformatics Scientist/Engineer

Location: Carmel, IN (preferred) / Boston, MA

Employment Type: Full-time

Join the AI-first team that is transforming precision medicine into everyday clinical practice. Our platform integrates whole-genome sequencing, microbioimcs, electronic medical records, and AI reasoning to generate mechanism-based guidance for physicians.

As a Bioinformatics Scientist/Engineer
, you will contribute to the development and validation of clinical-grade pipelines across pharmacogenomics (PGx), polygenic risk scoring (PRS), and other WGS applications
.

You will develop tools that derive clinical utility from raw genomic data, working alongside software engineers, medical subject matter experts, and regulatory leaders to deliver clinical grade interpretations directly in the hands of physicians.

Develop and improve clinical genomics pipelines in your area of interest:

• PGx track:
  Star-allele calling pipelines (e.g., CYP2D6, CYP2C19, DPYD, TPMT) handling structural variation and complex alleles.
• PRS track:
  Polygenic risk score pipelines with multi-ancestry PRS models and clinical calibration.

Support existing 30X WGS infrastructure for feature extraction and clinical annotation.

Help curate and maintain annotation stacks integrating domain-specific databases (Pharm

GKB, CPIC, Pharm Var, PGS Catalog) and proprietary AI-derived knowledge graphs. Contribute to automated updates of clinical-grade knowledge sources.

Support validation, reproducibility, and audit trail implementation; assist with pipeline change-control documentation.

Partner with software and AI engineers to integrate genomic features into AI models. Participate in cross-team design reviews and internal workshops.

• MS (or BS with 3+ yrs experience) in Genetics, Genomics, Bioinformatics, Computational Biology, Statistical Genetics, or related field.
• 2+ yrs experience or academic training in one of the following:
  • Pharmacogenomics: star-allele calling, diplotype assignment, phenotype prediction
  • Polygenic risk scoring: GWAS analysis, PRS development, ancestry considerations
• Familiarity with variant calling (DRAGEN, GATK) and functional annotation methods.
• Proficiency in Python for reproducible analysis, data processing, and visualizations.
• Experience with version control (Git) and collaborative software development practices.
• Will willingness to learn AWS services and cloud-based genomics workflows.
• Comfortable with AI-based development tools (Claude Code, Cursor, OpenAI Agents).

• Exposure to other omics (proteomics, epigenomics, transcriptomics).
• Experience with pipeline frameworks.
• Familiarity with clinical-grade databases.
• Strong communication skills—able to explain genomic concepts to diverse audiences.

• Meaningful contributions to pipeline development and validation efforts by month 6.
• Demonstrated growth and impact across the genomics platform with increased ownership of features and modules by month 12.

Python
· Jupyter
· REST APIs
· AWS Batch/EKS/Lambda/ECS
· AWS S3
· AWS Glue/Athena
· PostgreSQL
· Nextflow
· DRAGEN
· GATK
· Stargazer/Cyrius
· PharmCAT
· PGS Catalog
· PRS-CS
· Git Hub Actions
· Docker

Remote/Hybrid flexibility
· Comprehensive health/dental/vision plans
· 401k Plan
· Annual company wide meet-ups