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Bioinformatics Pipeline Engineer (Remote)

extra holidays - extra parental leave

Remote:

Full Remote

Experience:

Mid-level (2-5 years)

Work from:

Massachusetts (USA), United States

Offer summary

Qualifications:

Bachelor's degree with 3+ years experience, Master's degree with 1+ year experience, Experience in clinical and biological data, Knowledge of bioinformatic methods and tools.

Key responsabilities:

Develop, validate, and implement software applications
Prepare reports and communicate technical activities

Quest Diagnostics Large http://www.questdiagnostics.com

10001 Employees

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Job description

Look for more than answers.

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 Solutions Engineering group, part of the Research and Development organization, in Molecular Genomics & Oncology unit. 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 Bioinformatics Solutions Engineering group is a cross-functional unit focusing on end-to-end design, develop, document, validation and launching of new high quality diagnostic tests and services for the benefit our patients.

This person can work 100% remote and must be located in the US.

Develop, validate, and implement new software applications, databases, processes, and interfaces relating to next-generation sequencing (NGS) data analysis, advanced diagnostic testing development and validation, data quality review, and clinical reporting.
Serve as SME on specific systems/workflows supporting advanced development and high-tier production support.
Participate in resolution of support requests. Regularly report progress and prepare data analyses for internal review
Prepare reports and other communications of technical activities related to business objectives such as product/process development and improvement.
Activities may be focused individual projects or, more usually, assignments as a member of a project team, often working closely with other Software Developers, R&D bench scientists, Genetic Counselors, Operations Scientists, and other technical business partners.

3+ years of experience with a Bachelor's degree or 1+ year with a Master's degree and experience in an industrial or academic setting working with clinical and biological data or equivalent and underlying technologies including bioinformatic methods, database development, query/scripting/programming languages, cloud development, agile methodology, DevOps and other data analysis tools.

Preferred Work Experience / Skills

Bioinformatics tools such as Dragen, bwa, VEP, FastQC, MultiQC, samtools, bedtools
Experience with sequencing data analysis, bioinformatics, variant data analysis
Pipeline workflow management languages: Nextflow (preferred), Cromwell, CWL, etc.
Database: SQL (e.g., postgress, MySQL), understanding of NoSQL databases
Cloud Computing: AWS
Infrastructure management: Terraform, AWS CDK
Programming Languages: Advanced level with interpreted/scripting languages such as Python, javascript/typescript, R, etc.
Containerizing: Docker
Experience with designing and working with application programming interfaces (e.g. JSON based RESTful APIs)
Web Frameworks: Python Flask, React Native, Bootstrap
Reporting: Familiarity with R Markdown, Jupyter Notebook
Visualization: Experience with any of ggplot2/tidyverse, Plotly, matplot lib, Tableau, d3.js
Source Control: Git
CI/CD: Gitlab CI/CD, Github CI/CD
Understanding of environment management
Experience of working in clinical diagnostics setting (regulations, controlled processes, environment management) is a plus.

Education

Bachelor’s Degree(Required)

Master’s Degree

Equal Opportunity Employer: Race/Color/Sex/Sexual Orientation/Gender Identity/Religion/National Origin/Disability/Vets