Bioinformatics Operations Engineer (Hybrid)

Location: San Juan Capistrano, CA, US

Employment Type: Regular Full-Time

Job Description

Pay Range: $118,000.00 - $138,000.00 / 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, CA. This 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. 

Responsibilities:

• 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

Qualifications:

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

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While we appreciate and value our staffing partners, we do not accept unsolicited resumes from agencies. Quest will not be responsible for paying agency fees for any individual as to whom an agency has sent an unsolicited resume.

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