Denis V. Rubtsov

University of Cambridge, Cambridge, England, United Kingdom

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Publications (2)3.86 Total impact

  • Julian L. Griffin · Denis V. Rubtsov
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    ABSTRACT: The need for standard operating protocols (SOPs) has long been recognized in all branches of analytical chemistry and is especially useful in transferring a given assay from one laboratory to another and for the cross-comparison of results. However, the field of standardized protocols has received renewed interest following the completion of the human genome project and the birth of functional genomics. The use of analytical equipment such as NMR spectroscopy and mass spectrometry in metabolomics, proteomics, and related functional genomic approaches has led to an increased need to standardize the reporting of data acquisition so that results in one laboratory can be validated in another. Ultimately databases can be produced of experimental data that catalog a tier of cellular organization, and in this manner a systems biology description of the biological world is approached. Given that any true description of the proteome or metabolome must by very definition consider all the changes that occur to these dynamic systems, it becomes clear that a full description will only be achieved by community-led initiatives, and thus standardized protocols become a vital cornerstone of any such endeavor. This article surveys recent developments in the area of standard reporting of protocols in metabolomics. However, to do this, it is first necessary to set the context of standardization of protocols in biology in general and the field of functional genomics in particular.
    No preview · Chapter · Jan 2010
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    ABSTRACT: Using an NMR based approach, employing both solution state and high resolution magic angle spinning (HR MAS) 1H NMR spectroscopy, in conjunction with an array of statistical methods, we report cerebral metabolic deficits in a mouse model of Batten disease (Cln3 null mutant mice). Batten disease is the most common progressive neurodegenerative disorder of childhood and is caused by mutations in the Cln3 gene. In particular, brain tissue from Cln3 mice was characterised by increased concentrations of glutamine, myo-inositol, scyllo-inositol, aspartate and lactate, alongside decreased concentrations of N-acetyl-l-aspartate (NAA), N-acetyl-l-glutamate (NAG), γ-amino butyric acid (GABA), glutamate and creatine. Accompanying changes in lipid deposition were also detected in intact cortical tissue by HR MAS 1H NMR spectroscopy. To realise the true potential of metabolomic datasets necessitates a comprehensive analysis of the data, such that useful biological information can be extracted and used to generate hypotheses which can be further tested and refined. We found that using a combination of univariate and multivariate analyses, a maximal number of metabolic deficits were successfully identified. In particular the complementary nature of the statistical approaches allowed the definition of changes which were relative, absolute or simply a change in variance, allowing a greater understanding of the disease processes detected.
    Full-text · Article · May 2007 · Metabolomics