Senior Bioinformatics Engineer - Clinical Genomics & Cloud

Quest Diagnostics Incorporated; Baltimore (MD); Hybrid; USD 130,000 - 160,000; Full time

Benefits offered by this job

Day 1 Medical

401(k) with company match

Education assistance

Hybrid work schedule

Job summary

Quest Diagnostics Incorporated seeks a Senior Bioinformatics Pipeline Engineer to design and optimize cloud-based, clinical-grade NGS workflows. You will bridge assay development with informatics systems and implement automated pipelines for high-throughput data processing.

You will lead containerization, CI/CD, and IaC practices, collaborating with pathologists and software engineers to ensure regulatory compliance and robust software validation.

Qualifications

• 7+ years of professional experience in bioinformatics or computational biology.
• Deep knowledge of NGS data processing, alignment, variant calling and annotation.
• Experience with production-grade pipelines using Nextflow or Snakemake.

Responsibilities

• Architect, implement, and maintain scalable genomic pipelines for clinical NGS data.
• Develop, modularize, and optimize workflow code for data processing from raw output to final interpretation.
• Design containerization strategies and ensure environment isolation and reproducibility.
• Lead cloud deployment on AWS and monitor resources to control costs.

Skills

Python

Shell

Nextflow

Snakemake

BWA

GATK

Docker

Singularity

AWS

Terraform

Git

CI/CD

Education

Bachelor's in bioinformatics or related field

Master's in bioinformatics or related field

Tools

AWS

Terraform

CloudFormation

Docker

Singularity

Nextflow

Snakemake

GATK

SnpEff

VEP

HL7/FHIR

Job description

Quest Diagnostics Incorporated seeks a Senior Bioinformatics Pipeline Engineer to design and optimize cloud-based, clinical-grade NGS workflows. You will bridge assay development with informatics systems and implement automated pipelines for high-throughput data processing.

You will lead containerization, CI/CD, and IaC practices, collaborating with pathologists and software engineers to ensure regulatory compliance and robust software validation.