What are the responsibilities and job description for the Bioinformatics Pipeline Engineer (Remote) position at Quest Diagnostics?
Overview
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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.
Responsibilities
• 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.
Qualifications
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
EEO
Equal Opportunity Employer: Race/Color/Sex/Sexual Orientation/Gender Identity/Religion/National Origin/Disability/Vets
