Flagship Pioneering, Inc. - Lead Data Engineer
Requirements
• 6+ years of hands-on experience in data engineering, preferably in life sciences, biotech, or healthcare environments. • Proven expertise in designing and operating cloud-native data architectures, particularly within AWS. • Advanced proficiency in Python and SQL for data manipulation, pipeline development, and system automation. • Extensive experience with modern frameworks and tools such as Dagster, dbt, Spark, Iceberg, Lake Formation, Athena, Glue, etc. • Strong experience with Git, CI/CD, CDK, containerized workloads, Docker, and ECS. • Experience supporting both structured and unstructured data (CSV, JSON, Parquet, imaging, etc.). • Demonstrated success in leading complex, cross-functional projects involving technical and scientific stakeholders. • Practical experience using generative AI tools (e.g., Claude Code, GPT-based tools, etc.) to boost engineering velocity and reduce boilerplate. • A track record of leading complex technical initiatives under ambiguity, making explicit trade-offs and remaining accountable for reliable operational outcomes. • Experience supporting bioinformatics, cheminformatics, or clinical data workflows. • Familiarity with scientific software and ELN’s, particularly Benchling and CDD. • Exposure to Agile or Scrum-based development methodologies. • Relevant certifications (e.g., AWS Solutions Architect Associate, Data Analytics Specialty). • Flagship Pioneering invents and builds platform companies, each with the potential for multiple products that transform human health, sustainability and beyond. Since its launch in 2000, Flagship has originated more than 100 companies. Many of these companies have addressed humanity’s most urgent challenges: vaccinating billions of people against COVID-19, curing intractable diseases, improving human health, preempting illness, and feeding the world by improving the resiliency and sustainability of agriculture. • Flagship has been recognized twice on FORTUNE’s “Change the World” list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies and has been twice named to Fast Company’s annual list of the World’s Most Innovative Companies. Learn more about Flagship at www.flagshippioneering.com. • At Flagship, we accept impossible missions to enable bigger leaps. Our core values guide us through uncertainty and toward lasting impact.
Responsibilities
• Data & Platform Engineering • Serve as the technical lead and subject matter expert on complex data engineering projects involving interdependent systems, legacy environments, and emerging cloud-first platforms. • Lead the implementation of data infrastructure, platforms, tools, and other data products. • Lead the optimization and reliability of data storage solutions (lakehouses, marts, warehouses, etc.). • Implement complex backend and data integration pipelines to support data lakes, marts, and other platforms. • Establish and reinforce engineering standards for testing, documentation, release management, and monitoring across the team. • Lead implementations for platform observability, management, resilience, capacity, and performance. • Diagnose and resolve complex failures spanning infrastructure and data pipelines; lead incident reviews and ensure corrective actions improve the wider system. • Cross-Functional Collaboration & Technical Leadership • Collaborate across I&O, Lab IT, PI Tech, data science, and bioinformatics teams to ensure architectural alignment, reuse of components, and shared understanding of system states and dependencies. • Mentor junior engineers and establish engineering standards that drive excellence, reproducibility, and innovation across the team. • Leverage generative AI tools and frameworks to accelerate pipeline development, data transformation, and metadata enrichment at scale.
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