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Lead Bioinformatics Engineer

Flagship Pioneering · Cambridge, MA USA · On-site

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About Flagship Pioneering

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About the role

Flagship Pioneering is seeking a Bioinformatics Engineer to join the Scientific Cloud team within Flagship IT. This is a high-impact individual contributor role reporting into the Director, Scientific Cloud Engineering, embedded within the sub-team.

What they're looking for

  • M.S. or Ph.D. in Bioinformatics, Computational Biology, Genomics, Computer Science, or a closely related field
  • 7+ years of hands-on bioinformatics engineering experience, including production-grade pipeline development and deployment
  • Deep expertise in genomic data types and file formats (FASTQ, BAM/CRAM, VCF, BED, HDF5, AnnData, etc.) and the computational tools used to process them
  • Demonstrated experience building and operating cloud-native bioinformatics workflows (AWS preferred, Azure or GCP acceptable) using workflow managers such as Nextflow, Snakemake, or WDL
  • Strong programming proficiency in Python and/or R, with experience in shell scripting for pipeline automation
  • Familiarity with public genomic data repositories and the access/compliance frameworks that govern them (e.g., dbGaP, UK Biobank, TCGA)
More about this role

Flagship Pioneering is a life sciences innovation enterprise that invents and builds transformative companies. Since its founding in 2000, Flagship has originated more than 100 ventures, including Moderna, and has deployed over $4 billion toward scientific discovery. Our Scientific Cloud team is the connective tissue that powers data and technology infrastructure across Flagship's growing portfolio of companies.

About Scientific Cloud : Scientific Cloud is Flagship Pioneering's portfolio-facing IT organization, responsible for the cloud engineering, data and informatics engineering, research systems, lab systems, and vendor management capabilities that power Flagship's emerging companies. The team operates with a portfolio-first orientation — building durable, shared infrastructure that individual ventures can rely on at every stage of company formation and growth.

Flagship Pioneering is seeking a Bioinformatics Engineer to join the Scientific Cloud team within Flagship IT. This is a high-impact individual contributor role reporting into the Director, Scientific Cloud Engineering, embedded within the sub-team.

The Bioinformatics Engineer will own and operate Flagship's...

Read the full posting on Flagship Pioneering's site ↗

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