Studying Salmonellae and Yersiniae host-pathogen interactions using integrated 'omics and modeling.

No abstract is available for this paper.

• Publication year

  2012

• Venue

  Current Topics in Microbiology and Immunology

• Publication date

  2012-12-01

• Fields of study

  Biology, Medicine, Computer Science, Environmental Science

• Identifiers
  DOI 10.1007/82_2012_247PMID 22886542PMCID PMC6197062
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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• Proteogenomics: needs and roles to be filled by proteomics in genome annotation.

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• Salmonella, the host and disease: a brief review

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• Global reconstruction of the human metabolic network based on genomic and bibliomic data

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• Large-Scale Mapping and Validation of Escherichia coli Transcriptional Regulation from a Compendium of Expression Profiles

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• Metabolomics: current state and evolving methodologies and tools

  2007cited by this paper
• Theory and Limitations of Genetic Network Inference from Microarray Data

  2007cited by this paper
• Experimental and Computational Assessment of Conditionally Essential Genes in Escherichia coli

  2006cited by this paper
• Towards multidimensional genome annotation

  2006cited by this paper
• Negative regulation of Salmonella pathogenicity island 2 is required for contextual control of virulence during typhoid.

  2005cited by this paper
• Reconstruction of microbial transcriptional regulatory networks.

  2004cited by this paper
• Proteogenomic mapping as a complementary method to perform genome annotation

  2004cited by this paper
• Two-dimensional annotation of genomes

  2004cited by this paper
• From Gene Trees to Organismal Phylogeny in Prokaryotes:The Case of the γ-Proteobacteria

  2003cited by this paper
• Faculty Opinions recommendation of From gene trees to organismal phylogeny in prokaryotes: the case of the gamma-Proteobacteria.

  2003cited by this paper
• Yersinia type III secretion

  2002cited by this paper
• Analysis of optimality in natural and perturbed metabolic networks

  2002cited by this paper
• Analysis of optimality in natural and perturbed metabolic networks

  2002cited by this paper
• Evaluation of two-dimensional gel electrophoresis-based proteome analysis technology.

  2000cited by this paper
• A conserved amino acid sequence directing intracellular type III secretion by Salmonella typhimurium.

  2000cited by this paper
• Environmental regulation of Salmonella pathogenicity island 2 gene expression

  1999cited by this paper
• 'Metabonomics': understanding the metabolic responses of living systems to pathophysiological stimuli via multivariate statistical analysis of biological NMR spectroscopic data.

  1999cited by this paper
• The Yersinia Deadly Kiss

  1998cited by this paper
• Proteome analysis: Biological assay or data archive?

  1998cited by this paper
• Emergence of multidrug-resistant Salmonella enterica serotype typhimurium DT104 infections in the United States.

  1998cited by this paper
• Characterization of the yeast transcriptome.

  1997cited by this paper
• A comparison of selected mRNA and protein abundances in human liver

  1997cited by this paper
• Studies on the role of plasminogen activator in systemic infection by virulent Yersinia pestis strain C092.

  1997cited by this paper
• Yersinia pestis--etiologic agent of plague

  1997cited by this paper
• Serial analysis of gene expression: ESTs get smaller.

  1996cited by this paper
• Construction of defined F1 negative mutants of virulent Yersinia pestis.

  1995cited by this paper
• Construction of defined F1 negative mutants of virulent Yersinia pestis.

  1995cited by this paper
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  1995cited by this paper
• Regulation by Ca2+ in the Yersinia low‐Ca2+ response

  1993cited by this paper
• Factors promoting acute and chronic diseases caused by yersiniae

  1991cited by this paper
• Determinants of DNA sequence divergence betweenEscherichia coli andSalmonella typhimurium: Codon usage, map position, and concerted evolution

  1991cited by this paper
• Mutants of Salmonella typhimurium that cannot survive within the macrophage are avirulent.

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• Yersinia pestis grows within phagolysosomes in mouse peritoneal macrophages

  1984cited by this paper
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  1984cited by this paper
• Characterization and clinical identification of Enterobacteriaceae by DNA hybridization.

  1978cited by this paper
• Characterization and clinical identification of Enterobacteriaceae by DNA hybridization.

  1978cited by this paper
• Genetics of the Enterobacteriaceae. C. Molecular relationships among members of the Enterobacteriaceae.

  1971cited by this paper
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  1969cited by this paper
• The role of multiplication of Pasteurella pestis in mononuclear phagocytes in the pathogenesis of flea-borne plague.

  1959cited by this paper

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