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Come join our team at CDC working to prevent and respond to healthcare-associated infections and antimicrobial resistance.

ESSENTIAL JOB FUNCTIONS:

  • Maintain, de-bug, execute and improve bioinformatics tools and
    pipelines used in-house, including implementation of workflow manager
    programs (e.g., nextflow)
  • Build new bioinformatics tools and
    pipelines as appropriate, including creating containers for
    applications (e.g., docker, singularity)
  • Maintain updated git account
    documenting scripts and programs.
  • Analyze sequence data from
    scientific projects and programs of bacterial isolates using
    appropriate programs and bioinformatics tools and pipelines,
    including: Quality assessment of next generation sequence data; Analyses for identification and subtyping of healthcare-associated
    and emerging bacterial pathogens;
  • Identify, validate, and implement
    methods and procedures to analyze next generation sequencing data,
    including methods for characterization and phylogenetic analyses and
    adjustments in methods and procedures as appropriate.
  • Coordinate
    sequence data sharing with requestors and collaborating laboratories.
  • Manage incoming sequence data for processing, documentation,
    tracking, and inventory as needed.
  • Integrate laboratory (conventional
    and next generation), clinical, and epidemiologic data generated to
    provide analyses of data from healthcare-associated infection and
    other emerging pathogen studies and investigation.
  • Develop new and improved concepts, principles,
    and techniques that will advance the body of knowledge of information
    management.
  • Apply advanced computer science methods and techniques to
    solve complex computer processing requirements for data analysis,
    inventory management and clinical system interface.
  • Enhance existing
    data systems; edit, proofread, and critique team members in a
    professional manner.

NECESSARY SKILLS & EXPERIENCE:

Highly proficient or possess extensive experience with Bash (no exceptions)
Highly proficient or possess extensive with Python (no exceptions)
Must be proficient with common bioinformatics open-source tools (e.g., samtools, bcftools, bwa-mem), HPC (high performance computing), and NCBI.
Proficient with tools to elucidate mobile genetic elements from short read data (e.g., PlasFlow).
Self-motivated with a strong attention to detail and accuracy.
Fluent English in written, verbal, and interpersonal exchanges.

MINIMUM QUALIFICATIONS:

Bachelor’s degree in Biostatistics, Statistics, Epidemiology, Public Health, or related field.
3 – 8 years’ relevant experience in a Bioinformatics role.

PREFERRED QUALIFICATIONS:

Master’s degree in Biostatistics, Statistics, Epidemiology, Public Health, or related field.

  • Experience with Oxford Nanopore technology (e.g., MinION) platform
    bioinformatics analyses.
  • Experience with nextflow or other workflow manager programs, creating
    containers for applications (e.g., docker, singularity), Git (i.e.,
    GitLab, GitHub), frameworks for storing and processing large data
    sets (e.g., Hadoop).
  • Experience with tools to elucidate mobile genetic elements from short
    read data (e.g., PlasFlow).
  • Cloud migration and integration is a huge plus.



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