ProPharma
Biotech
SeniorBioinformaticsDataEngineer(Consultant)
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“Senior Bioinformatics Data Engineer (Consultant) at ProPharma. Skills: Data Engineering, Bioinformatics, Cloud, Python. Build ingestion pipelines. Maintain ingestion pipelines”
Industry & Context.
Catching silent failures; Questioning data correctness assumptions; Noticing lossy joins; Noticing incomplete deliveries; Identifying edge cases
background check, compliance training, VPN access
What They're Looking For.
Must Have
5+ years professional experience, production pipelines on AWS, proficiency in Python and SQL, working knowledge of modern data engineering libraries, Advanced proficiency with dbt, workflow orchestration tool (Dagster, Airflow, or Prefect), Data quality instinct, Solid understanding of lakehouse architecture patterns, Solid understanding of ETL processes, Solid understanding of schema design, Ability to handle PHI-adjacent clinical data, Willingness to work within legacy codebases, Excellent communication skills, ability to work in an embedded pair model
Nice to Have
Direct experience with Apache Iceberg, Direct experience with AWS Glue Catalog, Direct experience with lakehouse table formats, Comfort reading genomic data, Familiarity with clinical data standards, Pharma background, Clinical research background, Life sciences background, Experience with containerization (Docker/ECS), Experience with infrastructure-as-code (CloudFormation), Proficiency in R
What You'll Do.
Build ingestion pipelines
Maintain ingestion pipelines
Develop dbt Silver-to-Gold transformations
Implement clinical data ingestion paths
Implement reconciliation logic
Implement subject-dimension routing
Deliver platform infrastructure
Extract transformation rules
Reconcile against new platform implementations
Identify repetitive processes
Convert processes into automated workflows
Convert processes into guardrails
Convert processes into reusable tooling
Participate in adversarial design reviews
Participate in code reviews
Ensure work meets reproducibility standards
Ensure CI on every PR
Ensure automated tests
Ensure no ad-hoc notebook-based production processes
How You'll Work.
Team & Collaboration
paired working sessions; PR reviews
Communication Scope
Communication skills
Process & Methodology
CI/CD pipelines
Full Job Description
For the past 25 years, ProPharma has improved the health and wellness of patients by providing advice and expertise that empowers biotech, med device, and pharmaceutical organizations of all sizes to confidently advance scientific breakthroughs and introduce new therapies. ProPharma partners with its clients through an advise-build-operate model across the complete product lifecycle. With deep domain expertise in regulatory sciences, clinical research solutions, quality & compliance, pharmacovigilance, medical information, and R&D technology, ProPharma offers an end-to-end suite of fully customizable consulting solutions that de-risk and accelerate our partners’ most high-profile drug and device programs. ## Key Responsibilities * Build and maintain Dagster-orchestrated ingestion pipelines for genomics vendors (Caris, Predicine, Tempus, Olink, CellCarta), including IO managers, Iceberg writers, and row-level accounting. * Develop and harden dbt Silver-to-Gold transformations: real-data test coverage, store-failures patterns, staging/intermediate/mart models, and macro consolidation. * Implement clinical data ingestion paths (SDTM and ADaM), reconciliation logic, and subject-dimension routing. * Deliver platform infrastructure: FastAPI endpoints, CI/CD pipelines, containerized deployments, observability instrumentation, and Redshift performance tuning. * Extract transformation rules from legacy R and PySpark code and reconcile against new platform implementations. * Identify repetitive processes and convert them into automated workflows, guardrails, or reusable tooling. * Participate in adversarial design and code reviews, identifying edge cases and pushing back on suboptimal patterns. * Collaborate with the lead engineer on design decisions and jointly own delivery velocity through paired working sessions and PR reviews. * Ensure all work meets reproducibility standards: CI on every PR, automated tests, no ad-hoc notebook-based production processes. ## Minimum Quali
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