Job Description:
The successful candidate will be a full-time employee of IHRC, Inc. and will be assigned to the Enteric Diseases Laboratory Branch (EDLB), Division of Foodborne, Waterborne, and Environmental Diseases (DFWED), National Center for Emerging and Zoonotic Infectious Diseases (NCEZID) at the Centers for Disease Control and Prevention (CDC), 1600 Clifton Road, Atlanta, GA to provide bioinformatics support to EDLB. SCOPE OF WORK The Bioinformatician will develop the next generation of bioinformatics tools to perform outbreak analyses of foodborne pathogens. The successful candidate will identify genetic markers extracted from whole genome sequences that might be useful in identification and subtyping, and also those in identification of antimicrobial resistance markers directly from stool. The candidate will also develop bioinformatics pipelines to identify these markers and tools for the analysis of the targeted metagenomics data that will be the output of identified markers. The work will be performed on CDC-generated and publicly available sequences from a variety of foodborne bacterial pathogens including Shiga toxin-producing E. coli, Salmonella, Listeria and Campylobacter, among others. Additionally, the candidate will work on metagenomic sequence data. MAJOR DUTIES AND RESPONSIBILITIES
Additional Info:
IHRC, Inc. provides scientific, information management, management consulting, bioinformatics, and administrative program support to the Centers for Disease Control and Prevention (CDC) and other Federal and private sector clients. To apply for this position:
The successful candidate will be a full-time employee of IHRC, Inc. and will be assigned to the Enteric Diseases Laboratory Branch (EDLB), Division of Foodborne, Waterborne, and Environmental Diseases (DFWED), National Center for Emerging and Zoonotic Infectious Diseases (NCEZID) at the Centers for Disease Control and Prevention (CDC), 1600 Clifton Road, Atlanta, GA to provide bioinformatics support to EDLB. SCOPE OF WORK The Bioinformatician will develop the next generation of bioinformatics tools to perform outbreak analyses of foodborne pathogens. The successful candidate will identify genetic markers extracted from whole genome sequences that might be useful in identification and subtyping, and also those in identification of antimicrobial resistance markers directly from stool. The candidate will also develop bioinformatics pipelines to identify these markers and tools for the analysis of the targeted metagenomics data that will be the output of identified markers. The work will be performed on CDC-generated and publicly available sequences from a variety of foodborne bacterial pathogens including Shiga toxin-producing E. coli, Salmonella, Listeria and Campylobacter, among others. Additionally, the candidate will work on metagenomic sequence data. MAJOR DUTIES AND RESPONSIBILITIES
- Assist with outbreak response analysis activities during national and international foodborne disease outbreaks.
- Support data management systems within EDLB.
- Manage genome and metagenome sequence files and databases, including uploads to the National Center for Biotechnology Information (NCBI) or other similar sequence data banks.
- Develop and implement tools for bioinformatic analysis of bacterial whole genome sequences and metagenomics sequences.
- Prepare and deliver clear, concise and accurate reports and presentations for supervisors, colleagues, and collaborators at internal and external meetings.
- Travel in order to present scientific findings at scientific meetings.
- Fulfill mandatory Biosafety and IT security training requirements.
- Must have successfully completed a higher degree (Master’s or Ph.D.) with at least 24 semester hours in mathematics, statistics, bioinformatics, or informatics.
- Must have 2-3 years demonstrated experience with bioinformatics, bioinformatics analytical tools, microbiology, and molecular biology laboratory techniques.
- Proficiency in the analysis, assembly, and annotation of genomic data from a variety of sequencing platforms such as Illumina and PacBio.
- Strong interpersonal skills required for work in a multidisciplinary team environment and extensive interaction with people across CDC and external partners.
- Strong written and oral presentation skills.
- Capable of developing and executing routine tasks independently.
- Experience/training in Linux (BASH scripting) and cluster computing (SGE environment).
- Experience coding in Perl and/or Python.
- Experience with BioPerl and/or BioPython.
- Experience with relational databases (e.g. MySQL, Microsoft SQL server, SQLite).
- Experience with Microsoft Excel, Microsoft Word, Microsoft PowerPoint.
- Experience with metagenomics databases such as Kraken and MetaPhlAn, prior work with bacterial genome analysis.
- Experience with Microsoft Access.
Requeriments :
Skills :
- Bioinformatics
- Lunix/Unix
- Metagenomics
- Microbiology
- molecular biology
- MySQL
- Next Generation Sequencing
- Programing in Python
- Programming in PERL
- SQL
Areas :
Additional Info:
IHRC, Inc. provides scientific, information management, management consulting, bioinformatics, and administrative program support to the Centers for Disease Control and Prevention (CDC) and other Federal and private sector clients. To apply for this position:
- If you are viewing this position on the IHRC Career Center, please click on the "Apply Now" button.
- If you are viewing this position on a site other than the IHRC Career Center, you may use the “click to apply” link, or you may apply by visiting our Career Center and searching for the position number listed at the top of this position description.
- To view all of our open positions, and to apply to those positions in which you may be interested, please visit our Career Center, which can also be reached by visiting www.ihrc.com/Careers and clicking on the “View Opportunities” link.