Remote-Friendly Biotech Data Engineer: End-to-End Pipelines

Matterworks, Inc.; Somerville (MA); Hybrid; USD 110,000 - 150,000; Full time

Benefits offered by this job

Stock options

Health benefits

Dental

Vision

Disability insurance

Life insurance

401k match

Flexible time off

Commuter benefits

Parking

Team meals

Education support

Conference participation

Job summary

Matterworks, Inc. in Somerville, MA is seeking a Data Engineer to build and run pipelines behind our Large Spectral Models. You will own end-to-end pipelines that ingest, enrich, validate, and publish datasets used by our AI team and product.

You will collaborate with ML researchers, scientists, and the product team in a hybrid work environment. Requirements include 2+ years building data pipelines, proficiency in Python and SQL, and experience with cloud data infra (Argo Workflows, Metaflow,

Qualifications

• 2+ years of professional experience building data pipelines in production.
• Proficient in Python and SQL.
• Working knowledge of cloud data infrastructure. We run Argo Workflows and Metaflow on EKS, Glue and Athena over Apache Iceberg and Parquet, DuckDB, and Terraform.
• Demonstrated experience owning a pipeline or dataset end to end, including the tests, the monitoring, and the failures.
• Comfort with messy data and messy formats, and the patience to track down why two sources disagree.
• Daily use of AI coding tools, paired with healthy skepticism about their output on questions of production data correctness.
• Clear written communication, particularly when explaining what broke and what you changed.
• Curiosity about the science. Experience in life sciences, biotechnology, or biochemistry is a plus but not a requirement, and you will work alongside strong in-house chemistry every day.
• A passion for contributing to an early‑stage startup where autonomy, eagerness to learn, and enthusiasm for solving novel scientific challenges prevail over rigid processes and egos.

Responsibilities

• Build and Operate Pipelines: Own well‑scoped pipelines end to end: designed, tested, instrumented, documented, and running on a schedule.
• Labels and Enrichment: Turn raw data into datasets people can actually use, with consistent schemas, trustworthy metadata, and documented definitions.
• Data Quality Checks: Design, build and extend our quality checks so that each build gets compared against the last one before it publishes, and a failure stops the pipeline instead of shipping.
• Ingest and Acquisition: Bring new public and partner datasets into the platform: fetching, converting, validating, and reconciling them against what we already hold. Expect messy scientific and vendor formats and file that require continuous improvements to our systems to handle at scale.

Skills

Data pipelines

Python

SQL

End-to-end ownership

Cloud data infra

Argo Workflows

Metaflow

EKS

Athena

Iceberg

Parquet

DuckDB

Terraform

Tools

Argo Workflows

Metaflow

EKS

Glue

Athena

Terraform

Job description

Matterworks, Inc. in Somerville, MA is seeking a Data Engineer to build and run pipelines behind our Large Spectral Models. You will own end-to-end pipelines that ingest, enrich, validate, and publish datasets used by our AI team and product.

You will collaborate with ML researchers, scientists, and the product team in a hybrid work environment. Requirements include 2+ years building data pipelines, proficiency in Python and SQL, and experience with cloud data infra (Argo Workflows, Metaflow,