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Research Project Description

Microbiologist/Bioinformatics Fellowship
Clinical and Environmental Microbiology Branch
Division of Healthcare Quality Promotion
National Center for Emerging and Zoonotic Infectious Diseases
Centers for Disease Control and Prevention
Atlanta, GA


Project Description:

A fellowship opportunity is currently available in the Clinical and Environmental Microbiology Branch (CEMB) of the Division of Healthcare Quality Promotion (DHQP) within the National Center for Emerging and Zoonotic Infectious Diseases (NCEZID) at the Centers for Disease Control and Prevention (CDC).

DHQP’s mission is to protect patients and healthcare personnel, and promote safety, quality and value in both national and international healthcare delivery systems. To support this mission, CEMB: provides reference antimicrobial susceptibility testing; provides reference identification services for anaerobes, staphylococci and related genera, and the non-tuberculous mycobacteria (excluding M. tb complex, M. leprae, and M. ulcerans); provides laboratory assistance for the investigation of outbreaks and other adverse events in healthcare settings; maintains surveillance programs for important, healthcare-associated bacterial pathogens;  and develops and optimizes methods to detect and decontaminate pathogenic bacteria on healthcare surfaces, water, and devices.

Under the guidance of a mentor, opportunities may include:

  • Developing a high-level bioinformatics support program for molecular biologists and microbiologists by developing a pipeline for interpreting large data sets generated through genomic projects
  • Providing statistical and computational tools for biologically-based activities (such as genetic analysis)
  • Assisting in the training of scientists in the selection and use of bioinformatics tools
  • Analyzing complex datasets (such as raw microarray data) for clinical or basic research purposes (such as outbreak investigations)
  • Participating in multidisciplinary research projects involving molecular epidemiology , microbiome analysis and bioinformatics
  • Compiling data for use in genome annotation, metagenomics and structural bioinformatics
  • Handling complex genome-wide sequencing data to implement a workflow that will provide principal component analysis, structure, dendritic tree and other types of population genetic analyses
  • Performing population analysis and interpreting data generated from high-throughput sequencing platforms
  • Communicating research results through conference presentations, scientific publications or project reports
  • Performing whole genome sequence analysis of bacterial pathogens to assess relatedness (outbreaks, transmission studies)
  • Assisting in the development of standardized criteria for relatedness determination in outbreak settings

The Research Participation Program for CDC is administered by the Oak Ridge Institute for Science and Education (ORISE). The initial appointment is for one year, but may be renewed upon recommendation of CDC contingent on the availability of funds. The participant will receive a monthly stipend depending on educational level and experience. The participant must show proof of health insurance. The appointment is full-time at CDC in the Atlanta, Georgia, area. Participants do not become employees of CDC or the program administrator, and there are no fringe benefits paid.


  • A Bachelor’s, Master’s or Doctoral degree in microbiology, biology or a related science received within the last five years, or completion of all requirements for the degree should be expected prior to the starting date.
  • Experience and/or training in bioinformatics, biostatistics and genomic sequence data analysis is required.
  • Knowledge of routine microbiology laboratory procedures, molecular biology techniques and sequence data analysis is preferred.
  • Knowledge of computer applications, including various bioinformatics software programs for analyzing genomics data (e.g., GATK, BioNumerics, QIIME, Sequencher, etc.), Blast, and Microsoft Office is also desired.

How to Apply:

To be considered, please send a current CV/resume to the attention of Please reference CDC-NCEZID-2014-0036 in all communications.