Bioinformatics Systems Integration Lead Engineer

GeneDx is a rapidly growing CAP and CLIA certified diagnostic genetic testing laboratory for molecular genetics. Our historic mission has been to make clinical diagnostic testing available for people with genetic conditions and their families. We apply cutting edge technologies that provide a wide array of molecular genetic diagnostic tests, including whole exome sequencing and next generation sequencing panels. To learn more about GeneDx, please visit our website at

GeneDx is seeking a Lead Engineer - Bioinformatics Systems Integration (FT, 40 hours) to work at our Gaithersburg, MD location, Monday through Friday, 8:30 a.m. to 5:00 p.m.

Role: The Lead Engineer - Bioinformatics Systems Integration will be responsible for the deployment, integration, and support of bioinformatics applications for genomic testing operations across GenPath and GeneDx. This position will also be responsible for optimization and modernization of existing systems and processes. He or she will additionally serve as the liaison between the GenPath genomics production laboratory and the assay development team at GeneDx.

• Works closely with the assay development, clinical, wet lab, and IT teams to bring new assays into production
• Gathers requirements, designs high-level workflows, anticipates business needs, and estimates timelines for GenPath bioinformatics projects
• Creates and improves existing testing and deployment frameworks for bioinformatics software development
• Optimizes existing systems (pipelines, databased, etc.) to improve scalability and maintainability
• Contributes to the development of software for new assay implementation
• Establishes and implements policies for bioinformatics software validations and releases and other related activities
• Mentors jurior developers in best coding practices and general career development
• Supervises GenPath laboratory informatics software engineers supporting and transitioning from legacy systems (Filemaker, MS Access)
• Supports LIS system development and integration at GenPath; LIS development is performed by a third party
• Travels up to 10-20% (maximum 2 days every other week) to GenPath at BioReference Laboratories in Elmwood Park, NJ

Qualifications:

• BS or MS in Bioinformatics, Computer Science, or a related field
• 10+ years professional software development experience
• 5+ years leadership experience
• 5+ years experience in genomics/bioinformatics software development
• Proficiency in at least one major scripting language (Perl, Python)
• Proficiency in relational database engineering (Postgres, MySQL, etc.)
• Proficiency in Linux shell
• Proficiency with Git version control or another modern version control system
• Experience with HPC or cloud computing (Slurm, AWS, SGE, etc.)
• Broad knowledge of modern genomic assay technologies and data (NGS, aCGH, etc.)

All your information will be kept confidential according to EEO guidelines.

Benefits include:

• Paid Time Off (vacation, sick, personal, holiday, jury duty, bereavement leave)
• Health, dental, vision, life insurance, LT/ST disability plans
• Flexible Spending Account (FSA)
• Health Savings Account (HSA)
• 401K retirement savings plan with a 4% company match and immediate vesting
• Tuition Assistance
• Employee Discounts (cell phone service, movie tickets, etc.)
• Many promotions from within

Business casual, dog-friendly work environment

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