<?xml version="1.0" encoding="UTF-8"?><xml><records><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>13</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">Assia Saltykova</style></author><author><style face="normal" font="default" size="100%">Wuyts,V.</style></author><author><style face="normal" font="default" size="100%">Sophie Bertrand</style></author><author><style face="normal" font="default" size="100%">Nancy Roosens</style></author><author><style face="normal" font="default" size="100%">Marchal,K.</style></author><author><style face="normal" font="default" size="100%">Sigrid C.J. De Keersmaecker</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Data analysis associated with the use of whole genome sequencing for subtyping of pathogenic microorganisms, Salmonella Typhimurium as a case study</style></title><secondary-title><style face="normal" font="default" size="100%">Applied Bioinformatics in Life Sciences</style></secondary-title></titles><keywords><keyword><style  face="normal" font="default" size="100%">a</style></keyword><keyword><style  face="normal" font="default" size="100%">an</style></keyword><keyword><style  face="normal" font="default" size="100%">analysi</style></keyword><keyword><style  face="normal" font="default" size="100%">analysis</style></keyword><keyword><style  face="normal" font="default" size="100%">application</style></keyword><keyword><style  face="normal" font="default" size="100%">approach</style></keyword><keyword><style  face="normal" font="default" size="100%">approaches</style></keyword><keyword><style  face="normal" font="default" size="100%">AS</style></keyword><keyword><style  face="normal" font="default" size="100%">at</style></keyword><keyword><style  face="normal" font="default" size="100%">bioinformatics</style></keyword><keyword><style  face="normal" font="default" size="100%">Case</style></keyword><keyword><style  face="normal" font="default" size="100%">case studies</style></keyword><keyword><style  face="normal" font="default" size="100%">Case study</style></keyword><keyword><style  face="normal" font="default" size="100%">case-study</style></keyword><keyword><style  face="normal" font="default" size="100%">Comparison</style></keyword><keyword><style  face="normal" font="default" size="100%">continue</style></keyword><keyword><style  face="normal" font="default" size="100%">Cost</style></keyword><keyword><style  face="normal" font="default" size="100%">data</style></keyword><keyword><style  face="normal" font="default" size="100%">Decline</style></keyword><keyword><style  face="normal" font="default" size="100%">detection</style></keyword><keyword><style  face="normal" font="default" size="100%">discrimination</style></keyword><keyword><style  face="normal" font="default" size="100%">ECONOMIC</style></keyword><keyword><style  face="normal" font="default" size="100%">EPIDEMIOLOGICAL</style></keyword><keyword><style  face="normal" font="default" size="100%">Genome</style></keyword><keyword><style  face="normal" font="default" size="100%">Human</style></keyword><keyword><style  face="normal" font="default" size="100%">identification</style></keyword><keyword><style  face="normal" font="default" size="100%">INFECTION</style></keyword><keyword><style  face="normal" font="default" size="100%">INFORMATION</style></keyword><keyword><style  face="normal" font="default" size="100%">IS</style></keyword><keyword><style  face="normal" font="default" size="100%">IT</style></keyword><keyword><style  face="normal" font="default" size="100%">legal</style></keyword><keyword><style  face="normal" font="default" size="100%">Life</style></keyword><keyword><style  face="normal" font="default" size="100%">microorganism</style></keyword><keyword><style  face="normal" font="default" size="100%">microorganisms</style></keyword><keyword><style  face="normal" font="default" size="100%">NGS</style></keyword><keyword><style  face="normal" font="default" size="100%">ON</style></keyword><keyword><style  face="normal" font="default" size="100%">ORIGIN</style></keyword><keyword><style  face="normal" font="default" size="100%">outbreak</style></keyword><keyword><style  face="normal" font="default" size="100%">parameters</style></keyword><keyword><style  face="normal" font="default" size="100%">pathogenic</style></keyword><keyword><style  face="normal" font="default" size="100%">Quality</style></keyword><keyword><style  face="normal" font="default" size="100%">result</style></keyword><keyword><style  face="normal" font="default" size="100%">results</style></keyword><keyword><style  face="normal" font="default" size="100%">routine</style></keyword><keyword><style  face="normal" font="default" size="100%">Salmonella</style></keyword><keyword><style  face="normal" font="default" size="100%">Salmonella enterica</style></keyword><keyword><style  face="normal" font="default" size="100%">Salmonella typhimurium</style></keyword><keyword><style  face="normal" font="default" size="100%">Science</style></keyword><keyword><style  face="normal" font="default" size="100%">situation</style></keyword><keyword><style  face="normal" font="default" size="100%">SOCIAL</style></keyword><keyword><style  face="normal" font="default" size="100%">Species</style></keyword><keyword><style  face="normal" font="default" size="100%">Still</style></keyword><keyword><style  face="normal" font="default" size="100%">study</style></keyword><keyword><style  face="normal" font="default" size="100%">Subtyping</style></keyword><keyword><style  face="normal" font="default" size="100%">subtyping of isolates</style></keyword><keyword><style  face="normal" font="default" size="100%">Surveillance</style></keyword><keyword><style  face="normal" font="default" size="100%">use</style></keyword><keyword><style  face="normal" font="default" size="100%">WGS</style></keyword><keyword><style  face="normal" font="default" size="100%">whole genome</style></keyword><keyword><style  face="normal" font="default" size="100%">whole genome sequencing</style></keyword></keywords><dates><year><style  face="normal" font="default" size="100%">2016</style></year><pub-dates><date><style  face="normal" font="default" size="100%">17/3/2016</style></date></pub-dates></dates><publisher><style face="normal" font="default" size="100%">NA</style></publisher><pub-location><style face="normal" font="default" size="100%">NA</style></pub-location><language><style face="normal" font="default" size="100%">eng</style></language><abstract><style face="normal" font="default" size="100%">&lt;p&gt;As the cost of bacterial whole genome sequencing (WGS) by NGS continues to decline, its application for routine (sub)typing of pathogenic microorganisms quickly becomes a reality. NGS allows to examine relationships between different bacterial isolates of the same species at the highest possible resolution, which is essential for epidemiological surveillance and outbreak detection. However, it is still a largely unresolved question how to convert WGS data into information of sufficient quality to be reliably used for epidemiological characterization and discrimination, including the identification of a link between the origin of an infection and the human isolate in case of outbreak situations.Here, we have explored the possibilities offered by single nucleotide polymorphism (SNP)-based approach implemented in three different workflows to subtype 32&lt;/p&gt;
</style></abstract><issue><style face="normal" font="default" size="100%">VIB</style></issue><custom1><style face="normal" font="default" size="100%">5269</style></custom1><custom2><style face="normal" font="default" size="100%">03/17/2016-03/18/2016</style></custom2></record></records></xml>