Whole Genome Sequencing: A Tutorial and Hands-on Workshop to Help Understand This Emerging Technology

Workshop Registration Fees

  • Members $625.00
  • Non-Members $725.00
  • Student $312.50
  • Late-fee $75.00

Workshop Description

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Whole Genome Sequencing (WGS) has taken the Front Stage as a tool to understand the environment around us.  It is being used globally to track outbreak strains of bacteria, monitor microbial communities and understand changes in populations of organisms based on temporal and forced stimuli.  WGS is more complex than past methodologies (such as PFGE) and has more components that need to be understood. What IS WGS? What is the science behind the technology?  How do I perform an experiment? How do I analyze my data?  What do the data mean?  This workshop seeks to shed light on WGS so that the student will have a more holistic view of the applications of WGS.  We will provide sessions on technology, data analysis and data interpretation that the FDA, CORE and Compliance employ for outbreak investigations and regulatory decision-making.  Each attendee will be analyzing WGS datasets in command-line format to trim, assemble and build a phylogenetic tree. Finally, we will also learn about some available open source tools for data analysis that may be implemented for data analysis upon return from the workshop.

Food manufacturers, Food processors, QA/QC managers and staff, Regulators, Research Scientists.

Workshop Topics

Introduction into Whole Genome Sequencing

Introduction to WGS Data Analytics

Introduction to Phylogenetics

Introduction to GenomeTrakr and NCBI Pathogen Detection Website

Virtual Tools for Data Analysis

Examples of How CORE uses WGS for Outbreak Investigation

WGS in Regulatory Decision Making

Linux Overview

Hands-On Analysis of an WGS Dataset

Hands-On Exercises Using Open Source Tools

Workshop Instructors

Peter Cook, University of Georgia – Griffin, Griffin, GA

Zachary Geurin, NSF International, Ann Arbor, MI

Leslie Hintz, U.S. Food and Drug Administration, College Park, MD

Maria Hoffmann, U.S. Food and Drug Administration, College Park, MD

Kari Irvin, U.S. Food and Drug Administration, CORE, CFSAN, College Park, MD

Bill Klimke, National Institutes of Health, Bethesda MD

Jesse Miller, NSF International, Ann Arbor, MI

Eric Stevens, U.S. Food and Drug Administration–CFSAN-ORS-DM, College Park, MD

Ruth Timme, U.S. Food and Drug Administration, College Park, MD

Workshop Organizers

Jesse Miller, NSF International, Ann Arbor, MI

Maria Hoffmann, U.S. Food and Drug Administration, College Park, MD