Cloud-Scale Bioinformatics Platform Engineer

Eli Lilly and Company; San Francisco (CA); On-site; USD 66,000 - 194,000; Full time

Job summary

Lilly is seeking a Bioinformatics Platform Engineer to join the Bioinformatics and Cloud Platform team in San Francisco. This hands-on role focuses on operating, improving, and scaling the scientific computing infrastructure that powers production bioinformatics workflows in AWS.

You will work at the intersection of bioinformatics, cloud infrastructure, and platform engineering, collaborating with scientists and engineers to run complex NGS workflows reliably and at scale.

Qualifications

• MS in Science, Engineering, Bioinformatics, Computational Biology, or related field.
• 3 years of experience working in pharma, biotech, or life sciences.
• Authorized to work in the United States on a full-time basis; Lilly will not sponsor work authorization or visas.
• Hands-on experience with NGS and bioinformatics workflows (Nextflow, Snakemake).
• Strong Linux systems expertise.
• Strong AWS experience including IAM, EC2, S3, networking fundamentals.
• Experience with Terraform, Chef, or CloudFormation.
• Experience integrating systems across cloud and enterprise environments.
• Demonstrated ability to debug complex systems spanning multiple technologies.

Responsibilities

• Operate and improve our cloud platform that runs production NGS and bioinformatics workflows.
• Support and troubleshoot scientific workflow pipelines (Nextflow preferred).
• Operate and debug Linux-based production environments.
• Investigate and resolve complex issues across the entire platform stack, including workflow orchestration, cloud compute and storage, networking and security, IAM, and application services.
• Partner with scientists to translate workflow needs into scalable, secure platform solutions.
• Contribute to infrastructure automation and platform reliability improvements.
• Integrate and operate multiple research and enterprise platforms.
• Apply cloud security and operational best practices.
• Participate in technical roadmap discussions and platform architecture decisions.

Skills

Nextflow

Snakemake

Linux

AWS

Terraform

Chef

CloudFormation

Education

MS in Science, Engineering, Bioinformatics, Computational Biology, or related field

Tools

Terraform

Chef

CloudFormation

Job description

Lilly is seeking a Bioinformatics Platform Engineer to join the Bioinformatics and Cloud Platform team in San Francisco. This hands-on role focuses on operating, improving, and scaling the scientific computing infrastructure that powers production bioinformatics workflows in AWS.

You will work at the intersection of bioinformatics, cloud infrastructure, and platform engineering, collaborating with scientists and engineers to run complex NGS workflows reliably and at scale.