Senior Bioinformatics Scientist in Atlanta, GA at General Dynamics Information Technology

Date Posted: 8/12/2019

Job Snapshot

  • Employee Type:
    Full-Time
  • Location:
    Atlanta, GA
  • Job Type:
  • Experience:
    At least 2 year(s)
  • Date Posted:
    8/12/2019
  • Job ID:
    RQ40075

Job Description

GDIT is seeking a senior Bioinformatics Scientist to join its Team in Atlanta working with the Centers for Disease Control and Prevention (CDC), Office of Advance Molecular Detection (OAMD) to modernize CDC’s capability in infectious disease diagnostics, treatment, and pathogen surveillance.

The ideal candidate will be a skilled professional with broad experience in NGS bioinformatics and software development. Desired NGS bioinformatics experience includes reads quality assessment, sequence assembly, variant calling, phylogenetic analysis, genome annotation, and analytical pipeline development. The incumbent will collaborate with CDC staff and Team members to define project objectives, implementation details, and project schedules. Working as part of diverse team of bioinformaticians and IT professionals, the candidate is expected to contribute to the development of standards-based algorithms, and analysis workflows; the application of those tools to emerging needs of the CDC; and integration of those capabilities into broader bioinformatics activities and software development efforts within an Agile environment. Experience with viral and bacterial pathogen genomics is preferred.

The incumbent may be expected to assist in the development and presentation of seminars and training courses for the CDC bioinformatics community. This is an industrial bioinformatics group and although there will be elements of research to this position, the incumbent is expected to maintain a focus on product delivery.

Responsibilities and Job Functions:

  • Build and support cutting-edge workflows for the analysis and interpretation of NGS data from sequence production to variant calling and interpretation
  • Participate in the technical development process of an emerging web-based bioinformatics analysis platform
  • Implement state-of-the-art computational methods, and develop innovative approaches to software challenges that touch all aspects of NGS data analysis
  • Conduct programming and/or scripting using languages, such as Python, R/Bioconductor, JavaScript, and Java
  • Provide expertise in algorithm generation and statistical and computational methods for the analysis of complex, high-throughput biological data.
  • Conduct analysis of large-scale genomic datasets acquired internally and through collaboration with others
  • Ensure software adheres to appropriate government and regulatory compliance requirements
  • Assist in submitting NGS data to NCBI for publication purposes and maintain the internally developed NCBI submission tool
  • Maintain expertise in the science and application of genomic technologies
  • Provide professional grade reports on ongoing sequencing, analysis, and surveillance activities
  • Work with software development team members to mature and integrate analytical tools/pipelines into user accessible tools/interfaces in UNIX/Linux and high performance computing environments
  • Serve as a subject matter expert to guide complex software development activities
  • Assist in the development and presentation of seminars and training courses for the CDC bioinformatics community

Required Qualifications and Experience:

  • BS or the equivalent in a related field and a minimum of five years relevant experience.  A MS and three years experience or a PhD and one year experience may be substituted.  
  • Experience in algorithm generation, as well as pipeline generation and/or computational methods implementation
  • Good understanding of the theory of major NGS platforms
  • Experience working in development and application of bioinformatics workflows/pipelines for NGS data analysis
  • Proficiency with common bioinformatics tools and platforms, including bwa, SAMTools, GATK, SPAdes, GOTTCHA, MEGAN, and Kraken, among others
  • Fluency in Linux and high performance computing environments
  • Programming/scripting experience in languages, such as Python, R, JavaScript or Java
  • Familiarity with principles of object oriented programming
  • Familiarity with the NCBI data submission process
  • Experience in developing software in the Linux environment
  • Familiarity with statistical/mathematical packages/libraries in R or Python
  • Strong presentation skills

Desired Qualifications and Experience:

  • M.S. or Ph.D. in Bioinformatics, Computational Biology, Biostatistics, Computer Science, or other relevant discipline
  • Minimum of two years experience in bioinformatics and NGS data analysis, including the development of multistep analysis pipelines/workflows using scripting languages
  • Experience using software revision control systems (e.g., Git)
  • Experience developing production quality bioinformatics tools, workflows, and applications
  • Familiarity with workflow orchestration tools/standards, such as Common Workflow Language (CWL) or Workflow Description Language (WDL)
  • Experience developing portable bioinformatics tools using contemporary container technologies, such as Docker or Singularity
  • Familiarity with service-oriented architectures (SOA); experience developing within such architectures would be a bonus
  • Experience with full software development life cycle and software development best practices
  • Experience with several aspects of web-based application development, including Angular and NodeJS
  • Familiarity with relational and non-relational databases, such as MySQL, PostgreSQL, and MongoDB
  • Experience using collaboration and tracking tools, such as JIRA and Confluence
  • Experience working as part of Agile software development teams

Attributes for Success:

  • Comfortable working in a dynamic, fast paced environment
  • Comfortable working in a matrixed environment
  • Strong interpersonal skills
  • Strong verbal and written communication
  • Strong attention to detail
For more than 50 years, General Dynamics Information Technology has served as a trusted provider of information technology, systems engineering, training, and professional services to customers across federal, state, and local governments, and in the commercial sector. Over 40,000 GDIT professionals deliver enterprise solutions, manage mission-critical IT programs, and provide mission support services worldwide. GDIT is an Equal Opportunity/Affirmative Action employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, or veteran status, or any other protected class.','industry