Bioinformatics Operations Engineer (Hybrid)

Pay Range: $118000.00 - $138000.00 / year

Salary offers are based on a wide range of factors including relevant skills training experience education and where applicable certifications obtained. Market and organizational factors are also considered. Successful candidates may be eligible to receive annual performance bonus compensation.

Benefits Information:

We are proud to offer best-in-class benefits and programs to support employees and their families in living healthy happy lives. Our pay and benefit plans have been designed to promote employee health in all respects physical financial and developmental. Depending on whether it is a part-time or full-time position some of the benefits offered may include:

Day 1 Medical supplemental health dental & vision for FT employees who work 30 hours

Best-in-class well-being programs

Annual no-cost health assessment program Blueprint for Wellness

healthyMINDS mental health program

Vacation and Health/Flex Time

6 Holidays plus 1 MyDay off

FinFit financial coaching and services

401(k) pre-tax and/or Roth IRA with company match up to 5% after 12 months of service

Employee stock purchase plan

Life and disability insurance plus buy-up option

Flexible Spending Accounts

Annual incentive plans

Matching gifts program

Education assistance through MyQuest for Education

Career advancement opportunities

and so much more!

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 San Juan Capistrano position is intended to be either on site or hybrid working on site at least 2-3 days per week in our San Juan Capistrano CA lab. The team supports genetic/genomic testing in a highly regulated CAP/CLIA laboratory environment 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 Operations group supports hones and executes the processes defined by our Engineering and Lab Operations groups with emphasis on compliance and continuous improvement. While coupled tightly to regulation through standards in validation documentation and data retention the group is an integral part of the development cycle of our analysis workflows and visualization.

This professional will work in a hybrid capacity with 1-3 days onsite at our San Juan Capistrano CA facility.

• Support production day-to-day operations quickly pivoting focus to respond to incidents and requests
• Monitor execute and improve sequence analysis workflows and automation
• Track troubleshoot and mitigate issues encountered in processing production samples to meet strict Turnaround Times (TAT) and business SLAs
• Plan and develop solutions to recurring issues to be merged back into development branch maintained by the Engineering group
• Generate wrangle merge and glean information from varied and complex data sets
• Use of RESTful APIs linked to various systems including LIMS AWS job runners and other systems necessary for data processing and execution
• Design and perform validation testing and production deployment of systems and software to standardize processes across all Quest Diagnostics genetic testing labs
• Design and perform analytical validation analysis for new genomic testing products
• Write and maintain production documentation for compliance and supportability of all bioinformatics processes in production environment
• Produce charts and visualization for dashboards reporting and in support of data driven hypothesis testing
• Support interface integration and testing projects
• Utilize a Software Development Life Cycle documentation procedure
• Be an active team player and support the group
• Accept input on solutions from other colleagues and teams
• Availability for on-call support

The ideal candidate will have a history of using bioinformatic technical skills to deliver accurate and timely results.

Required:

• 5 yr experience using formal programming and scripting languages (Python Docker Shell Scripting)
• 5 yr experience working on a Linux command-line to process parse and merge varied data sets
• 3 yr experience in Whole-Genome Sequencing Variant Calling Annotation
• 3 yr experience in Pipeline Development (NextFlow)
• 3 yr experience in a relational database (SQL/Oracle)
• 3 Yrs experience in JIRA and/or Confluence
• 3 yrs experience in CI/CD (Git Github)
• Knowledge and understanding of genomics next-generation sequencing and bioinformatics including parsing and working with typical file formats (FASTQ BAM VCF)
• Experience supporting production grade software
• Experience with source control in a development testing and production environment
• Experience communicating technical results and data
• Experience working with APIs to pull/query data

Preferred:

• Knowledge of CAP documentation requirements or working in a regulated environment a plus

Education:

• Required: B.S. in Computer Science Software Engineering Bioinformatics or a related field.
• Preferred: MSc/PhD degree in Computer Science Software Engineering Bioinformatics

Preferred Technical Training:

• Agile certification
• Nextflow training
• Cloud Computing
• Data Science