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Employment Type:
Full time
Job Category:
Health Care Provider
Associate Bioinformatics Support Scientist
(This job is no longer available)
Illumina, Inc. | San Diego, CA
Grad Date

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Job Description

As a Bioinformatics Scientist in the Clinical Genomics Research group, you will assist in evaluation, deployment and support of analysis pipelines used for processing whole genome sequencing data within the Illumina Clinical Services Laboratory, a CAP/CLIA-accredited entity. The main focus of the position is to support bioinformatics operations of the CLIA lab, help with analysis of secondary analysis pipeline results, configuration/tuning of the pipeline and provide QC assessments of the data.  The Bioinformatics Scientist will work closely with R&D scientists, software and database teams, and medical geneticists. The successful candidate will help troubleshoot issues and work with development teams to resolve them..

  • Help in configuration and interpretation of data analysis NGS results to support current CLIA lab operations and assay development experiments
  • Help design and interpret statistically powered studies to support test/lab improvements
  • Assist in analysis of massively parallel sequencing (NGS) genomic data
  • Work collaboratively with other bioinformatics and research scientists to support QC assessment and standardized analysis protocols for each of the projects as appropriate
  • Work with the Bioinformatics team to implement new analysis methods in the pipelines based on R&D prototypes
  • Coordinate tasks such as collection of requirements, software verification and validation
  • Communicate findings to the research scientists and present results to the R&D, process engineering teams, and geneticists
  • Develop new lab reports or customize existing ones to meet specific scientific project needs


  • Bachelors/Masters in Bioinformatics, Computer Science, Statistics or related field is highly desirable.


  • Must have minimum of 1+ years of experience in a similar position including general experience in Life Sciences, Genomics, CLIA lab or Pharmaceutical industries.
  • Experience with C++, Java or Python is required
  • Experience with  supporting / using bioinformatics pipelines
  • Experience with genomic analysis of sequencing data and/or working with genetic variant data is desired
  • Experience with statistical analysis of multivariate data
  • Experience with databases such as MS SQL and Postgres
  • Expertise with issue tracking and revision control systems
  • Understanding of security and privacy considerations
  • Experience with implementation of CLIA and FDA guidelines in a regulated/design controlled environment is a plus
  • Ability to work independently with minimal supervision
  • Ability and willingness to work in a fast paced environment
  • Excellent time and project management skills.
  • Must have proficient written, communication and presentation skills with the ability to present to both scientific and corporate audiences.

Illumina believes that everyone has the ability to make an impact, and we are proud to be an equal opportunity employer committed to providing employment opportunity regardless of sex, race, creed, color, gender, religion, marital status, domestic partner status, age, national origin or ancestry, physical or mental disability, medical condition, sexual orientation, pregnancy, military or veteran status, citizenship status, and genetic information. If you have a disability or special need that requires accommodation, please contact us at applications@illumina.com. To learn more, visit: https://www.dol.gov/ofccp/regs/compliance/posters/pdf/eeopost.pdf

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About Illumina, Inc.

Illumina, Inc. is a developer, manufacturer and marketer of integrated systems for the large-scale analysis of genetic variation and biological function. The Company provides a comprehensive line of products and services that serve the sequencing, genotyping and gene expression markets. It also, develops and commercializes sequencing technologies used to perform a range of analyses, including whole genome re-sequencing, gene expression analysis and small ribonucleic acid (RNA) analysis. Its customers include genomic research centers, pharmaceutical companies, academic institutions, clinical research organizations and biotechnology companies. The Company operates in two business segments: Life Sciences and Diagnostics. On August 1, 2008, the Company acquired Avantome, Inc. The Company’s subsidiary is Solexa, Inc. (Source: 10-K)