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dc.contributor.advisorGally, Daviden
dc.contributor.authorRichardson, Emily Janeen
dc.date.accessioned2014-05-02T11:18:06Z
dc.date.available2014-05-02T11:18:06Z
dc.date.issued2013-11-29
dc.identifier.urihttp://hdl.handle.net/1842/8793
dc.description.abstractSalmonella is one of the most important pathogens of mankind and animals alike, causing several billion pounds worth of damage worldwide each year. We have sequenced, annotated and published 4 genomes of Salmonella of well-defined virulence in farm animals. This provides valuable measures of intraserovar diversity and opportunities to formally link genotypes to phenotypes in target animals. Specifically, we have examined pathway detrition and mutagenesis and linked this to host specificity of the serovars. With the advent of next generation sequencing there has been a boom in genomic sequence submission, and an onslaught of -omics data has ensued. Integrating these different data types is complex and there is little available to visualise this data in the context of its genome. We present GeneBook, a web-based tool that synchronously integrates disparate datasets, displaying a fully annotated genome, enriched with publicly available data and the user's private experiments. It is accessed through a user-friendly interface that allows scientists to interrogate genomic features across multiple, heterogeneous, experiments.en
dc.language.isoen
dc.publisherThe University of Edinburghen
dc.relation.hasversionRichardson EJ, Limaye B, Inamdar H, et al (2011) Genome sequences of Salmonella enterica serovar Typhimurium, Choleraesuis, Dublin, and Gallinarum strains of well-defined virulence in food-producing animals. J Bacteriol. 193(12):3162-3 [Genome announcement, IF: 3.726)en
dc.relation.hasversionRichardson EJ, Watson M (2012) The automatic annotation of bacterial genomes. Briefings in Bioinformatics. doi: 10.1093/bib/bbs007 [Review, IF: 9.283]en
dc.subjectSalmonellaen
dc.subjectNext-generation sequencingen
dc.subjectBioinformaticsen
dc.titleNext-generation bioinformatics analysis of bacterial genomes, with a focus on serovar host specificity and pathogenicity in Salmonellaen
dc.typeThesis or Dissertationen
dc.type.qualificationlevelDoctoralen
dc.type.qualificationnamePhD Doctor of Philosophyen


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