Bioinformatics Engineer

Job Location
3595 John Hopkins Courr
San Diego, CA 92121
Competitive base, bonus and equity

We are proud to offer our employees a comprehensive and competitive benefits program. This is our way of enriching the lives of you and your loved ones, and rewarding you for your dedication to the company.

Job Description

Come join SEQUENOM, the company that is committed to providing the best genetic analysis for research, molecular medicine and non-invasive prenatal diagnostics research.  We are growing and our success depends on the talents, efforts and achievements of our exceptional employees.  We offer compensation and employee benefit packages that are top in the industry.  So come join the team at SEQUENOM and feel the same passion we do for how we are changing medical technology. 

The Bioinformatics Engineer is responsible for the design and implementation of a sequencing analysis pipeline at Sequenom. More specifically, the candidate will:

•   Work in a clinical team that efficiently and accurately generates patient results
•   Maintain and optimize bioinformatics pipelines within a CLIA environment
•   Support laboratory and medical staff with results reporting and analytical review
•   Use analytics to detect lab and computational issues, track metrics and monitor performance
•   Perform appropriate documentation and testing
•   Report lab status to team members and Lab directors; support multi site operation


The position requires excellent communication skills and the ability to coordinate with projects from within multiple departments and multiple sites.  Project management skills are required as well as the ability to lead the implementation process.

The Qualified Candidate will have:

  • Master’s degree in molecular biology, bioinformatics, or related field.
  • 3 years of experience in a high-throughput sequencing environment and experience with next-generation sequencing and data analysis
  • Familiarity with genomic browser(s) content and functionality
  • Demonstrated expertise with PERL and shell scripting, and experience with Java
  • Experience with unit testing
  • Demonstrated expertise with relational database systems - SQL server, Oracle, MySQL, PostgreSQL
  • Experience with statistical software, such as R
  • Experience developing software for research purposes
  • Broad knowledge of UNIX/Linux
  • Ability to troubleshoot research-grade software, both internally developed as well as third-party provided.
How to Apply
About Our Organization

Sequenom team members thrive in a "science first" environment where ideas and innovation are part of daily life. This is your opportunity to work on cutting-edge science that is revolutionizing patient care.

Our innovation-driven culture means life at Sequenom is fast-paced, dynamic, and fun with rewarding benefits and performance rewards. With a clear vision for the future, all employees have the opportunity to make a difference and are encouraged to share new ideas. We foster a collaborative work environment and encourage curiosity at all levels.

Our corporate headquarters is located in the heart of San Diego’s life sciences community, less than a mile from the beach.

Students whose classmates are interested in science are more likely to think about a career in science, technology, engineering, and mathematics, a new study says.

CNBC reports that the genetic counseling field is expected to grow as personalized medicine becomes more common.

Gladys Kong writes at Fortune that her STEM background has helped her as a CEO.

Social scientists report that the image of the 'lone scientist' might be deterring US students from STEM careers.