Bioinformatics Data Engineer Co-Op — Hybrid (MA)

Flagship Pioneering Co-Op Program; Cambridge (MA); Hybrid; USD 34,000 - 48,000; Full time

Benefits offered by this job

Enrichment sessions

Dedicated professional development

Mentor guidance

Meaningful project outcome

Job summary

Flagship Pioneering Co-Op Program invites a Bioinformatics Data Engineering Co‑Op to join a startup‑style environment in the Flagship ecosystem. You will own scoped projects from start to finish, build production pipelines, and present outcomes to the team.

The role blends hands-on bioinformatics with data engineering in an industry drug discovery setting and offers enrichment sessions, a dedicated professional development track, and mentorship to guide your next steps.

Qualifications

• Currently pursuing a B.S. or M.S. in Bioinformatics, Computational Biology, Biology, Biochemistry, Computer Science or related field and available for a full-time, 4–6 month co-op term.
• Proficiency with Python (pandas) and comfort with the Linux command line.
• Git, and a habit of writing clear, tested, reproducible code.
• Coursework or project experience in genomics, molecular biology, proteomics, or related fields.
• Clear written communication; you document what you build.

Responsibilities

• Run production Nextflow pipelines for omics data on cloud infrastructure.
• Build, validate and monitor QC dashboards and datasets.
• Analyze proteomics evidence and perform peptide/protein mapping tasks.
• Write and test scripts to parse and summarize outputs into Parquet or TSV.
• Grow the data catalog by ingesting datasets and documenting schemas.

Skills

Python (pandas)

Linux command line

Git

Clear written communication

Dashboard or web app (Dash/Streamlit)

AI coding assistants experience

Education

Pursuing a B.S. or M.S. in Bioinformatics, Computational Biology, Biology, Biochemistry, Computer Science or related field

Available for a full-time, 4–6 month co-op term

Tools

Nextflow

Snakemake

Airflow

Docker

AWS

SQL

Job description

Flagship Pioneering Co-Op Program invites a Bioinformatics Data Engineering Co‑Op to join a startup‑style environment in the Flagship ecosystem. You will own scoped projects from start to finish, build production pipelines, and present outcomes to the team.

The role blends hands-on bioinformatics with data engineering in an industry drug discovery setting and offers enrichment sessions, a dedicated professional development track, and mentorship to guide your next steps.