Biotech Data Platform Engineer

Pioneering Medicines; Cambridge (MA); On-site; USD 74,000 - 127,000; Full time

Benefits offered by this job

Healthcare coverage

Annual incentive program

Retirement benefits

Job summary

Flagship Pioneering is seeking an Engineer, Software Development to help design and evolve a biological research platform that turns experimental work into organized, analysis-ready data. You’ll own the design through operation, preserving sample lineage and experimental context while building reliable computational workflows.

You will collaborate with experimental teams, design schemas, and orchestrate pipelines that harmonize heterogeneous data, enabling powerful querying, AI-enabled

Qualifications

• 3+ years post M.S. in CS; biology exposure preferred
• Hands-on programming and AI workflow orchestration with ability to specify architecture and constraints
• Data modelling with relational models, ORMs, and impact on queries (PostgreSQL on AWS)
• Python data engineering with Pandas, NumPy, and PyArrow
• Integration and automation experience (FastAPI, REST, Benchling) and AWS credentials/permissions
• Strong data integrity focus; prioritizes reliable, testable results over individual components
• Biological knowledge preferred (genes/proteins, assays, transcriptomics) and collaboration with scientists

Responsibilities

• Learn how experiments are run and how samples/results are tracked to remove slow manual steps
• Design reusable data models and workflows from concept through testing and operation
• Create schemas/interfaces spanning computational inputs/outputs to experimental records
• Build or orchestrate pipelines to harmonize metadata and validate results across systems
• Make data accessible via APIs, visualizations, and AI-enabled interfaces
• Configure safe cloud infrastructure and distinguish testing vs. deployment
• Preserve provenance, units, controls, QC; write meaningful tests and guard against bad joins
• Work with scientists on metadata conventions and workflows that fit lab practices

Skills

Programming experience

AI workflow orchestration

Data modelling

Python data engineering

AWS knowledge

Data integrity

Biology knowledge

Education

M.S. in Computer Science

Tools

PostgreSQL on AWS RDS

SQLAlchemy

Alembic

NumPy

Pandas

PyArrow

REST

Benchling

FastAPI

Bedrock

Job description

Flagship Pioneering is seeking an Engineer, Software Development to help design and evolve a biological research platform that turns experimental work into organized, analysis-ready data. You’ll own the design through operation, preserving sample lineage and experimental context while building reliable computational workflows.

You will collaborate with experimental teams, design schemas, and orchestrate pipelines that harmonize heterogeneous data, enabling powerful querying, AI-enabled