Hugo Berube

Bioinformatics and platform engineering leader advancing big data and data platform capabilities for pharmaceutical research. Leads the intersection of computational biology, software engineering, and cloud/HPC platforms to deliver scalable, reproducible workflow environments for omics and imaging. Brings deep experience across AWS, Nextflow/Seqera, scientific applications, and governance-minded platform delivery.

Bioinformatics Tech Lead & Senior Software Engineer - Pfizer Inc - Cambridge, MA

(2010-12)

• Led bioinformatics platforms for omics, imaging, and computational workflows, improving reproducibility, automation, governance, and self-service for 100 users across 50 pipelines.
• Scaled workflow execution with Seqera, Nextflow, AWS Batch, and containers, improving visibility, operational support, and reliability for research workloads while saving thousands of hours through migration from HPC to cloud.
• Led migration and enablement of workflow workspaces, pipelines, and analysis environments, maintaining scientist continuity while increasing standardization across cloud and HPC execution patterns.
• Designed and supported secure AWS and HPC execution paths for research pipelines, including S3 data access patterns, IAM role scoping, Slurm/LSF scheduling, containerized execution, and troubleshooting of storage or performance bottlenecks.
• Improved RNA-seq and omics data readiness through metadata integration, automated pipelines, API/model support, quality reporting, and analysis-ready outputs.
• Built and maintained scientific software and data platforms using Python, Java, Groovy, R, Django/Flask, SQL databases, REST APIs, and visualization frameworks, translating complex scientific workflows into accessible applications and dashboards.
• Strengthened platform governance through specifications, runbooks, onboarding, compliance-by-design, access support, and vendor coordination across Seqera, Seven Bridges/Velsera, and AWS.
• Used AI in engineering to speed up documentation, software delivery, and digital experiences; ensured build, linting, formatting, release, and verification guardrails.

Senior Bioinformatics Developer - National Research Council of Canada - Ottawa, Canada

(2008-08 - 2010-12)

• Served as Principal Software Engineer for a crop genomics research program, supporting scientific data integration, data warehouse development, and analytics across multiple research groups.
• Built knowledge-base and data-management systems that improved bioinformatics data organization and supported cross-stakeholder research collaboration.

Bioinformatics Developer - European Bioinformatics Institute (EBI) - Cambridge, United Kingdom

(2006-01 - 2008-08)

• Contributed to functional genomics resources by supporting database development, data integration, and access to large-scale datasets.
• Collaborated in international scientific software teams to improve research data organization, search, and reuse for the genomics community.

Management of AI, Technical Track (online) - Stevens Institute of Technology (2026)

M.Sc. - Bioinformatics - Laval University (2003 - 2005)

Genomics & Biotechnology Preparatory Studies - Sherbrooke University (2001 - 2003)

B.Sc. - Computer Science - Sherbrooke University (1996 - 2001)