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About AbbVie

AbbVie (NYSE:ABBV) is a global, research-driven biopharmaceutical company committed to developing innovative advanced therapies for some of the world’s most complex and critical conditions. The company’s mission is to use its expertise, dedicated people and unique approach to innovation to markedly improve treatments across four primary therapeutic areas: immunology, oncology, virology and neuroscience. In more than 75 countries, AbbVie employees are working every day to advance health solutions for people around the world.  For more information about AbbVie, please visit us at www.abbvie.com. Follow @abbvie on Twitter, Facebook or LinkedIn.​

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Associate Engineer II/ Engineer I, Genomics Data

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Research & Development
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2000242 Requisition #
Join our Talent Community

The Genomics Research Center (GRC) is a center of excellence for genetics and genomics that supports both Discovery and Development. The GRC plays an integral role towards our goal of developing world class genetics and genomics research, focusing on finding the right targets and helping us better understand not only human disease biology but also the behavior of and response to our drugs in clinical trials. Within the GRC, the Department of Bioinformatics is responsible for data analysis and provides analytical insight for both internal and external data. This involves the identification and characterization of underlying genetic, epigenetic, or genomic factors that are associated with disease diagnosis, prognosis and response (efficacy and safety) to drug treatment, identification of new targets, and interpretation of the impact of genetic and genomic evidence from population-based studies. 


We have exciting opportunities for a Bioinformatics Engineer – Genomics Data, based in AbbVie Oncology on the West Coast, with three sites in the San Francisco Bay Area (South San Francisco, Redwood City, and Sunnyvale). The successful candidates will work closely with bioinformaticians across the three sites. Physical location will be in Redwood City, California.

 

Key Responsibilities Include:

  • Engineer, maintain and improve upon existing pipeline code base and enable code reuse across different Linux environments / computing architecture deployed across multiple AbbVie Research sites

  • Use and leverage containers for deploying standard pipelines (Docker, AWS Container, etc.)

  • Translate and implement algorithms and protocols in a high performance computing environment

  • Develop and maintain data repositories in a structured manner for semi-automated computational reassessment and record keeping 

  • Develop web-based applications to enable data query, visualization and custom web-interfaces of data analytics pipelines (e.g. development of R Shiny applications)

  • Understand coding best practices paired with use of tools like Atlassian Suite for feature, request, and documentation tracking

Position will be hired based on level of experience.

  • Bachelors or Masters in Computer Science, Bioinformatics, Software Engineering, Computer and Electrical Engineering, or related field, with typically 3-5+ (BS) or 0-2+ (MS) years of relevant experience
  • Fluency in 2+ relevant programming languages, such as R, Python, Perl, Java, or C++; familiarity with Web Application frameworks such as Flask, Django, nodejs.
  • Demonstrated proficiency in a Linux environment and high performance distributed computing.
  • Familiarity with standard tools and data formats related to gene expression, enrichment analysis, genetic, genomic, or epigenetic data, e.g., encountered when analyzing high-throughput transcriptomic, whole exome, whole genome, whole methylome, GWAS, or targeted resequencing data.
  • Strong communication skills in a collaborative environment
Preferred Qualifications:
  • Experience analyzing and interpreting omics data for understanding disease mechanisms and model organism prioritization, especially in oncology/immune-oncology
  • Contemporary data visualization methods like D3, R Shiny, or Spotfire; as well as experience database management in SQL, SQLite, or MongoDB
  • Experience handling, visualizing, recording, and managing data with SQL or other enterprise solutions
  • Familiarity with annotation complexities (gene and features) from the various public annotation sources and how to map vendor assay technologies to current annotation based on their intended and unintended design.
  • Fluency with consortium disease specific (like the Cancer Genome Atlas, GEO, etc) or genomic databases (such as those relating to genome annotation, genetic variants, public data repositories).
  • Ability to perform or assist with high dimensional data mining, data integration and data extraction projects of internal and/or external public data via development and/or application of machine learning or artificial intelligence methods.
  • Attention to details, strong organizational, written and oral communication skills in a collaborative environment
  • Enjoy working in a fast paced and highly collaborative dynamic environment with a diverse team to tackle complex problems. 
  • Experience interpreting biological data related to diseases associated with oncology/immune-oncology

Equal Employment Opportunity Employer

At AbbVie, we value bringing together individuals from diverse backgrounds to develop new and innovative solutions for patients.  As an equal opportunity employer we do not discriminate on the basis of race, color, religion, national origin, age, sex (including pregnancy), physical or mental disability, medical condition, genetic information gender identity or expression, sexual orientation, marital status, protected veteran status, or any other legally protected characteristic.

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