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Bioinformatics Support Scientist



Job Location

11315 Rancho Bernardo Road
San Diego, CA 92127
United States

Job Description

We’re looking for a highly motivated bioinformatics scientist to join our remote Genomics Support team to help provide customer support on Agilent’s NGS analysis tools, including the Alissa Clinical Informatics platform.

This platform streamlines data analysis and variant assessment workflows-providing outstanding support from raw reads to draft reports, reducing workflow complexity and time.

As a Bioinformatics Support Engineer, you will assist customers with secondary and tertiary NGS analysis to efficiently prioritize, curate and report genomic variants.  

This role serves as customer contact on technical and troubleshooting cases. Support will include clinical customers and may deliver customer training/demos via WebEx. Works closely with sales, FAS, marketing, and R&D teams.


  • Provide online technical support to customers via phone and email
  • Expertly solve, troubleshoot and resolve customer’s technical inquiries
  • Provide customer facing NGS data analysis support for Agilent Genomics customers
  • Logs tickets in Tech Support CRM; work closely with Informatics Support, R&D Teams
  • Work with external customers such as bioinformatics, clinical genetics, laboratory scientists
  • Fixing data analysis files
  • Visualizing and assessing specific genetic variants and analyzing NGS data
  • Analyzing results from NGS assays


BS, MS, or PhD in Computer Science, Bioinformatics, or related field.

3+ years of experience with C#, C++, Java, Python, or similar software languages

Solid understanding of the Linux operating system

Familiarity with Amazon Web Services (AWS) architecture and concepts

Outstanding problem-solving skills

Understanding of the basic next-generation sequencing (NGS) workflows

Strong working knowledge of common genome analysis toolkits like GATK and BWA, as well as standard data formats common in the genomic analysis industry like FASTQ, FASTA, BCL, VCF, BAM, etc.


Typically requires a minimum of 5 years of related experience with a Bachelor’s degree or a Master’s degree; or a PhD with 3 years of experience; or equivalent experience


  • Expertise in building, implementing, and/or using clinical genomics analysis, interpretation, and reporting software
  • Detailed knowledge of human genetics, next-generation sequencing methods, variant calling pipelines and annotation tools.
  • Possesses strong interpersonal skills, with the ability to present sophisticated scientific principles to software engineers and other members of multi-functional teams
  • Proficiency in scripting languages, building pipelines that collaborate with APIs, and cloud computing
  • Experience with genomic variant interpretation preferred
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