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U.S. Department of Health and Human Services

About FDA

Development of Bioinformatics Approaches to Characterize Foodborne Pathogens

Description: Enhance ArrayTrack capabilities and integrate microbial omics data into the system for analysis of foodborne pathogens.

Definition: ArrayTrack is software invented by NCTR scientists that allow for the management, analysis, and interpretation of vast amounts of omics data and acts as a central database for foodborne pathogens that is available to the public.

The expanded use of ArrayTrack and other bioinformatic tools allows the FDA to support the rapid translation of scientific research into reliable and safer treatments by improving the management of available data.

Public Health Outcome: These studies will integrate genetic information into a publicly available central database for foodborne pathogens, which will facilitate more rapid advances in food safety.

Accomplishment: The FDA-TRACK project Development of Bioinformatics Approaches to Characterize Foodborne Pathogens focus on a multi-divisional effort (Divisions of Microbiology, Systems Biology and Personalized Nutrition and Medicine) to expand the capabilities of the existing molecular biological analysis program ArrayTrackTM developed at NCTR to enable the analyses of genomics and gene expression data from bacterial pathogens. The enhanced capabilities were successfully integrated into the ArrayTrackTM program and are available for FDA and public use. A manuscript describing the enhanced microbial analysis tools was published in the journal BMC Bioinformatics and a project utilizing the new tools for the analysis of microarray data was recently published in the Journal of Infection in Developing Countries. By incorporating these new capabilities in a publicly available program, scientists will be able to efficiently analyze molecular data collected on foodborne pathogens, which should facilitate more rapid advances in food safety.

Milestone DescriptionMilestone DateMilestone StatusMilestone Completion Date

1. Integrate existing microarray data from Salmonella studies into ArrayTrack for initial analysis

4/30/2010

Completed 4/30/2010

2. Develop study objectives to generate additional microarray data to incorporate into ArrayTrack

5/31/2010

Completed 5/31/2010

3. Prepare research plan to acquire microarray slides from the Pathogen Functional Genomics Research Core

6/30/2010

Completed 6/30/2010

4. Submit revised manuscript on ArrayTrack's new functions

7/31/2010

Completed 6/30/2010

5. Complete Salmonella enterica serovar Javiana microarray analysis

8/31/2010

Completed 7/30/2010

6. Acquire additional training on the USDA antimicrobial resistance microarray platform

9/30/2010

Completed 8/30/2010

7. Complete the peer review (NCTR and other FDA researchers) of draft technical report, manuscript, and/or publication

12/31/2010

Completed 11/30/2010

8. Obtain NCTR Center Director approval on the draft technical report, manuscript, and/or publication via the document tracking system

12/31/2010

Completed 11/30/2010

9. Submit the final technical report, manuscript, and/or publication to a scientific journal

3/31/2011

Completed 11/30/2010

Key Projects Legend

Milestone StatusDefinition
Not Yet StartedWork for specific milestone has not yet been started.
CompletedMilestone and/or overall project is completed.
On TrackMilestone - On track for completion by milestone deadline. Quarter status - Project is on track for completion based on overall milestone status.
On HoldMilestone - On hold, but deadline for completion has not passed. Quarter status - Project is on hold, based on overall milestone status.
DelayedMilestone - Delayed as it has not been completed and deadline has passed. Quarter status - Project is delayed based on overall milestone status.

Glossary

USDA

U.S. Department of Agriculture

Note: The data provided on this website is produced on an ongoing basis for performance management purposes and is subject to change due to updates of preliminary estimates, corrections, or other reasons. In addition, FDA may change the type or amount of data provided on this website at any time. Information marked as "Completed" may include measures and/or key projects for which activities are ongoing but no longer tracked as part of FDA-TRACK.