Bioinformatics Engineer (Remote)

Quest Diagnostics Incorporated; Marlborough (MA); Remote; USD 90,000 - 150,000; Full time

Job summary

An established industry player is seeking a Bioinformatics Engineer to join their innovative team. In this fully remote role, you will have the opportunity to leverage your programming skills and bioinformatics knowledge to enhance genetic testing processes. Your contributions will directly impact the efficiency and quality of laboratory operations, ensuring compliance in a highly regulated environment. Collaborate with cross-functional teams to develop cutting-edge solutions that advance the field of genomics. If you are passionate about making a difference in healthcare and thrive in a dynamic environment, this role is for you.

Qualifications

• 5+ years of experience with programming and scripting languages.
• Experience in software development and testing is essential.
• Knowledge of genomics and next-generation sequencing is required.

Responsibilities

• Execute and improve sequence analysis workflows and automation.
• Develop web-based results displays and dashboards for clinical geneticists.
• Collaborate with medical, quality, and compliance teams to address quality issues.

Skills

Programming and scripting languages

Linux command-line

Web services and API implementation

Genomics and bioinformatics

Software development and testing

Automated testing and CI/CD

Effective communication of technical results

Education

Bachelor's Degree

Master's Degree or PhD

Tools

Python

PERL

JavaScript

Terraform

AWS

Git

Docker

SQL (PostgreSQL, MySQL)

MongoDB

Nextflow

Job description

Bioinformatics, US Operations - the role

As a Bioinformatics Engineer, you will work for the world leader in the industry, with a career where you will have the opportunity to collaborate and affect change while expanding your leadership skills and technical knowledge. You can make a real impact in a market that is growing and developing.

This position is in our Bioinformatics Operations group, part of the Research and Development organization, in Advanced Diagnostics based in Marlborough, MA. The team supports genetic/genomic testing in a highly regulated CAP/CLIA laboratory environment, primarily using short and long-read sequencing as the basis of evidence. The right candidate will know how to balance innovation, standards, and quality with a practical understanding of when each is appropriate. The group supports, hones, and executes the processes defined by our Engineering and Lab Operations groups with an emphasis on compliance and continuous improvement. While closely tied to regulation through standards in validation, documentation, and data retention, the group plays an integral role in the development cycle of analysis workflows and visualization.

This position is 100% remote and requires the professional to be located in the US.

Responsibilities include:

1. Execute and improve sequence analysis workflows and automation
2. Track, troubleshoot, and mitigate issues in processing production samples
3. Assist in planning and developing solutions for recurring issues to be integrated into the development branch maintained by Engineering
4. Develop web-based results displays and dashboards for clinical geneticists, medical directors, and lab personnel
5. Manage data from varied and complex datasets, design and implement RESTful APIs linked to systems like LIMS and AWS job runners
6. Design, validate, test, and deploy systems and software to standardize processes across Quest Diagnostics genetic testing labs
7. Support daily production operations and maintain documentation for compliance
8. Collaborate with medical, quality, and compliance teams to address quality issues
9. Create visualizations for dashboards, reports, and hypothesis testing
10. Support LIS database management and interface testing projects
11. Adhere to Software Development Life Cycle procedures
12. Work collaboratively within the team and accept input from colleagues

Minimum qualifications:

• At least 5 years of experience with programming and scripting languages
• At least 5 years of experience working on Linux command-line for data processing
• At least 2 years of experience with web services and API implementation
• 3 years of experience in a distributed HPC environment
• Knowledge of genomics, next-generation sequencing, and bioinformatics
• Experience in software development and testing
• Experience with source control in development, testing, and production environments
• Automated testing and CI/CD experience preferred
• Understanding of CAP documentation requirements is a plus
• Ability to communicate technical results effectively

Current tech stack experience (preferred):

• Programming: Python, PERL, Groovy, JavaScript, Terraform
• Web Frameworks: Python Flask, React Native, Bootstrap
• Environments: R, iPython, Jupyter
• Visualization: Plotly, Matplotlib, ggplot2/tidyverse, Tableau, D3.js
• Databases: SQL (PostgreSQL, MySQL), MongoDB
• Cloud: AWS
• Infrastructure: Terraform
• Workflow Management: Nextflow
• Source Control: Git
• CI/CD: Gitlab, AWS CDK
• Containerization: Docker
• UI Tools: Access, VBA, Macros

Education:

Bachelor's Degree required; Master's Degree or PhD preferred.

Equal Opportunity Employer: Race/Color/Sex/Sexual Orientation/Gender Identity/Religion/National Origin/Disability/Vets or any other legally protected status.