Senior Bioinformatics Engineer - Immune Data Platform

Repertoire Immune Medicines, Inc.; Watertown (MA); On-site; USD 160,000 - 185,000; Full time

Job summary

Repertoire Immune Medicines is seeking a Senior Bioinformatics Engineer to join our Computational Engineering team to power discovery of immune medicines from our data-rich datasets. You will build end-to-end pipelines, data platforms, and scalable systems across target discovery, screening, pre-clinical development, and clinical analyses.

Ideal candidates bring 5+ years in biology-data systems, strong containerization and cloud infra skills, and a collaborative mindset to work with ML/Comp Bio

Qualifications

• Bachelor’s or Master’s degree in computer science or related coding-heavy field.
• 5+ years of work experience within the biology domain.
• Proven experience building/operating production data systems or pipelines (bioinformatics, data engineering, platform/SRE, or ML infrastructure).
• Hands-on with containers (Docker or Podman) and cloud infrastructure, ideally including infrastructure-as-code (AWS: ECS Fargate, EC2, S3, EFS, Step Functions, IAM, VPC, CDK).
• Exposure to workflow/orchestration (Step Functions and Nextflow/Snakemake) and event-driven patterns.
• Ability to partner with ML/Comp Bio and Lab Platform users; clear written and verbal communication with non-engineers; product/UX instincts for scientific users (FastAPI, React/Typescript).
• Intellectual curiosity, scientific rigor, and enthusiasm for working in a fast-paced, evolving research environment.

Responsibilities

• Build and operate bioinformatics pipelines from instrument to data ecosystem using workflow orchestration and containerized execution.
• Build durable data platforms that support data discovery by exposing data through clean, well-documented internal APIs, applications, and SQL databases.
• Provision and manage cloud infrastructure as code with secure engineering practices that keep systems robust, safe, and maintainable.
• Own engineering standards for the team including CI/CD test automation, version control, and design and review practices that keep systems maintainable as the team grows.
• Lead incident reviews and preventative improvements to diagnose the root cause of failures and build safeguards that prevent recurrence with verifiable gating mechanisms.
• Own end-to-end data processing and delivery to support scientific decision making around the organization.
• Develop agentic workflows and harnesses for developing bioinformatics pipelines.

Education

Bachelor’s or Master’s degree in computer science, software engineering, bioinformatics, or related coding-heavy majors

Tools

Docker

AWS CDK

AWS Step Functions

S3

EC2

Job description

Repertoire Immune Medicines is seeking a Senior Bioinformatics Engineer to join our Computational Engineering team to power discovery of immune medicines from our data-rich datasets. You will build end-to-end pipelines, data platforms, and scalable systems across target discovery, screening, pre-clinical development, and clinical analyses.

Ideal candidates bring 5+ years in biology-data systems, strong containerization and cloud infra skills, and a collaborative mindset to work with ML/Comp Bio