Warwick B Dunn

Summary

Affiliation: University of Manchester
Country: UK

Publications

  1. pmc Automated workflows for accurate mass-based putative metabolite identification in LC/MS-derived metabolomic datasets
    Marie Brown
    School of Biomedicine, The University of Manchester, Manchester M13 9PT, UK
    Bioinformatics 27:1108-12. 2011
  2. doi request reprint The importance of experimental design and QC samples in large-scale and MS-driven untargeted metabolomic studies of humans
    Warwick B Dunn
    Centre for Advanced Discovery and Experimental Therapeutics, Institute of Human Development, University of Manchester and Manchester Academic Health Sciences Centre, Central Manchester NHS Foundation Trust, York Place, Oxford Road, Manchester, M13 9WL, UK
    Bioanalysis 4:2249-64. 2012
  3. pmc Growth control of the eukaryote cell: a systems biology study in yeast
    Juan I Castrillo
    Faculty of Life Sciences, Michael Smith Building, University of Manchester, Oxford Road, Manchester M13 9PT, UK
    J Biol 6:4. 2007
  4. pmc Systematic integration of experimental data and models in systems biology
    Peter Li
    School of Chemistry, The University of Manchester, Manchester M13 9PL, UK
    BMC Bioinformatics 11:582. 2010
  5. ncbi request reprint Measuring the metabolome: current analytical technologies
    Warwick B Dunn
    Bioanalytical Sciences Group, School of Chemistry, University of Manchester, Faraday Building, Sackville Street, P O Box 88, Manchester, UKM60 1QD
    Analyst 130:606-25. 2005
  6. doi request reprint Integration of metabolomics in heart disease and diabetes research: current achievements and future outlook
    Warwick B Dunn
    Centre for Advanced Discovery and Experimental Therapeutics CADET, Central Manchester NHS Foundation Trust, University of Manchester, Manchester Academic Health Sciences Centre York Place, Oxford Road, Manchester, UK
    Bioanalysis 3:2205-22. 2011
  7. doi request reprint Procedures for large-scale metabolic profiling of serum and plasma using gas chromatography and liquid chromatography coupled to mass spectrometry
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, Manchester Interdisciplinary Biocentre, University of Manchester, Manchester, UK
    Nat Protoc 6:1060-83. 2011
  8. ncbi request reprint Metabolic profiling of serum using Ultra Performance Liquid Chromatography and the LTQ-Orbitrap mass spectrometry system
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, School of Chemistry, The Manchester Interdisciplinary Biocentre, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
    J Chromatogr B Analyt Technol Biomed Life Sci 871:288-98. 2008
  9. doi request reprint Current trends and future requirements for the mass spectrometric investigation of microbial, mammalian and plant metabolomes
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, School of Chemistry, University of Manchester, Manchester Interdisciplinary Biocentre, 131 Princess Street, Manchester, M1 7DN, UK
    Phys Biol 5:011001. 2008
  10. doi request reprint Systems level studies of mammalian metabolomes: the roles of mass spectrometry and nuclear magnetic resonance spectroscopy
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
    Chem Soc Rev 40:387-426. 2011

Detail Information

Publications45

  1. pmc Automated workflows for accurate mass-based putative metabolite identification in LC/MS-derived metabolomic datasets
    Marie Brown
    School of Biomedicine, The University of Manchester, Manchester M13 9PT, UK
    Bioinformatics 27:1108-12. 2011
    ..One of the limiting factors is that of chemically identifying metabolites from mass spectrometric signals present in complex datasets...
  2. doi request reprint The importance of experimental design and QC samples in large-scale and MS-driven untargeted metabolomic studies of humans
    Warwick B Dunn
    Centre for Advanced Discovery and Experimental Therapeutics, Institute of Human Development, University of Manchester and Manchester Academic Health Sciences Centre, Central Manchester NHS Foundation Trust, York Place, Oxford Road, Manchester, M13 9WL, UK
    Bioanalysis 4:2249-64. 2012
    ..In addition, we describe how to apply this in quality assurance processes. These innovations have opened up the capabilities to perform routine, large-scale, untargeted, MS-focused studies...
  3. pmc Growth control of the eukaryote cell: a systems biology study in yeast
    Juan I Castrillo
    Faculty of Life Sciences, Michael Smith Building, University of Manchester, Oxford Road, Manchester M13 9PT, UK
    J Biol 6:4. 2007
    ..Comprehensive studies at the transcriptional, proteomic and metabolic levels under defined controlled conditions are currently lacking...
  4. pmc Systematic integration of experimental data and models in systems biology
    Peter Li
    School of Chemistry, The University of Manchester, Manchester M13 9PL, UK
    BMC Bioinformatics 11:582. 2010
    ..Automating the assembly and use of systems biology models is dependent upon data integration processes involving the interoperation of data and analytical resources...
  5. ncbi request reprint Measuring the metabolome: current analytical technologies
    Warwick B Dunn
    Bioanalytical Sciences Group, School of Chemistry, University of Manchester, Faraday Building, Sackville Street, P O Box 88, Manchester, UKM60 1QD
    Analyst 130:606-25. 2005
    ..This review discusses the advantages and disadvantages of each technique, putting the current status of the field of metabolomics in context, and providing examples of applications for each technique employed...
  6. doi request reprint Integration of metabolomics in heart disease and diabetes research: current achievements and future outlook
    Warwick B Dunn
    Centre for Advanced Discovery and Experimental Therapeutics CADET, Central Manchester NHS Foundation Trust, University of Manchester, Manchester Academic Health Sciences Centre York Place, Oxford Road, Manchester, UK
    Bioanalysis 3:2205-22. 2011
    ..An outlook of the requirements for future successes will also be discussed...
  7. doi request reprint Procedures for large-scale metabolic profiling of serum and plasma using gas chromatography and liquid chromatography coupled to mass spectrometry
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, Manchester Interdisciplinary Biocentre, University of Manchester, Manchester, UK
    Nat Protoc 6:1060-83. 2011
    ..Methods for quality control-based robust LOESS signal correction to provide signal correction and integration of data from multiple analytical batches are also described...
  8. ncbi request reprint Metabolic profiling of serum using Ultra Performance Liquid Chromatography and the LTQ-Orbitrap mass spectrometry system
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, School of Chemistry, The Manchester Interdisciplinary Biocentre, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
    J Chromatogr B Analyt Technol Biomed Life Sci 871:288-98. 2008
    ..The data were used to indicate possible biomarkers of pre-eclampsia and showed both the instruments and XCMS to be applicable to the reproducible and valid detection of disease biomarkers present in serum...
  9. doi request reprint Current trends and future requirements for the mass spectrometric investigation of microbial, mammalian and plant metabolomes
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, School of Chemistry, University of Manchester, Manchester Interdisciplinary Biocentre, 131 Princess Street, Manchester, M1 7DN, UK
    Phys Biol 5:011001. 2008
    ..These include the detectable coverage of the metabolome, the identification of metabolites and the process of converting raw data to biological knowledge...
  10. doi request reprint Systems level studies of mammalian metabolomes: the roles of mass spectrometry and nuclear magnetic resonance spectroscopy
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
    Chem Soc Rev 40:387-426. 2011
    ..The current limitations and future goals of metabolomics in systems biology will also be discussed (374 references)...
  11. pmc A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes
    Kieran Smallbone
    Manchester Centre for Integrative Systems Biology, Manchester Institute of Biotechnology, The University of Manchester, UK
    FEBS Lett 587:2832-41. 2013
    ..This bottom-up modelling study reveals that control over the metabolic network most directly involved in yeast glycolysis is more widely distributed than previously thought. ..
  12. doi request reprint A GC-TOF-MS study of the stability of serum and urine metabolomes during the UK Biobank sample collection and preparation protocols
    Warwick B Dunn
    Bioanalytical Sciences Group, School of Chemistry, Manchester Interdiscplinary Biocentre, University of Manchester, 131 Princess Street, Manchester, M1 7ND, UK
    Int J Epidemiol 37:i23-30. 2008
    ....
  13. doi request reprint Development of a robust and repeatable UPLC-MS method for the long-term metabolomic study of human serum
    Eva Zelena
    Bioanalytical Sciences Group, School of Chemistry, Manchester Interdisciplinary Biocentre, University of Manchester, M1 7DN, UK
    Anal Chem 81:1357-64. 2009
    ..This method allows the acquisition of data and subsequent comparison of data collected across many months or years...
  14. doi request reprint Development and performance of a gas chromatography-time-of-flight mass spectrometry analysis for large-scale nontargeted metabolomic studies of human serum
    Paul Begley
    Bioanalytical Sciences Group, School of Chemistry, Manchester Interdisciplinary Biocentre, University of Manchester, M1 7DN, UK
    Anal Chem 81:7038-46. 2009
    ..This methodology allows the continuous acquisition and application of data acquired over many months in long-term metabolomic studies, including the HUSERMET project (http://www.husermet.org/)...
  15. doi request reprint Detection and identification of novel metabolomic biomarkers in preeclampsia
    Louise C Kenny
    Maternal and Fetal Health Research Centre, University of Manchester, St Mary s Hospital, Manchester, United Kingdom
    Reprod Sci 15:591-7. 2008
    ..The identity of these metabolites provides new insights into the pathology of this condition and raises the possibility of the development of a predictive test...
  16. pmc Improving metabolic flux predictions using absolute gene expression data
    DAVE LEE
    Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
    BMC Syst Biol 6:73. 2012
    ..Moreover, for the purposes of biotechnological applications, it is normally the flux to a specific metabolite or product that is of interest rather than the rate of production of biomass per se...
  17. pmc Absolute quantification of the glycolytic pathway in yeast: deployment of a complete QconCAT approach
    Kathleen M Carroll
    Manchester Centre for Integrative Systems Biology, Manchester Interdisciplinary Biocentre, University of Manchester, Manchester, United Kingdom
    Mol Cell Proteomics 10:M111.007633. 2011
    ..In addition, the same proteins were quantified by intensity-based label-free analysis, and both sets of data were compared with other quantification methods...
  18. doi request reprint The role of metabolites and metabolomics in clinically applicable biomarkers of disease
    Mamas Mamas
    Manchester Academic Health Science Centre, University of Manchester, UK
    Arch Toxicol 85:5-17. 2011
    ....
  19. pmc MeMo: a hybrid SQL/XML approach to metabolomic data management for functional genomics
    Irena Spasic
    School of Chemistry, Faraday Building, The University of Manchester, Manchester, M60 1QD, UK
    BMC Bioinformatics 7:281. 2006
    ..The metabolomic data produced need to be structured and annotated in a machine-usable form to facilitate the exploration of the hidden links between the genes and their functions...
  20. ncbi request reprint Metabolic footprinting and systems biology: the medium is the message
    Douglas B Kell
    School of Chemistry, University of Manchester, Faraday Building, PO Box 88, Sackville Street, Manchester M60 1QD, UK
    Nat Rev Microbiol 3:557-65. 2005
    ..Here, we review the principles, experimental approaches and scientific outcomes that have been obtained with this useful and convenient strategy...
  21. doi request reprint Fingerprinting food: current technologies for the detection of food adulteration and contamination
    David I Ellis
    School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester M1 7ND, UK
    Chem Soc Rev 41:5706-27. 2012
    ..It is hoped that this introductory overview acts as a springboard for researchers in science, technology, engineering, and industry, in this era of systems-level thinking and interdisciplinary approaches to new and contemporary problems...
  22. ncbi request reprint Closed-loop, multiobjective optimization of two-dimensional gas chromatography/mass spectrometry for serum metabolomics
    Warwick B Dunn
    School of Chemistry, The University of Manchester, Faraday Building, Sackville Street, Manchester M60 1QD, UK
    Anal Chem 79:464-76. 2007
    ..A variety of computational methods served to explain the basis for the improvement. This closed-loop optimization strategy is a generic and powerful approach for the optimization of any analytical instrumentation...
  23. doi request reprint TARDIS-based microbial metabolomics: time and relative differences in systems
    Catherine L Winder
    Manchester Centre for Integrative Systems Biology, Manchester Interdisciplinary Biocentre, University of Manchester, 131 Princess Street, Manchester M1 7DN, UK
    Trends Microbiol 19:315-22. 2011
    ....
  24. pmc From genomes to systems
    David I Ellis
    School of Chemistry, University of Manchester, Sackville Street, Manchester M60 1QD, UK
    Genome Biol 5:354. 2004
  25. doi request reprint Global metabolic profiling of Escherichia coli cultures: an evaluation of methods for quenching and extraction of intracellular metabolites
    Catherine L Winder
    School of Chemistry, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom
    Anal Chem 80:2939-48. 2008
    ....
  26. ncbi request reprint Metabolomics by numbers: acquiring and understanding global metabolite data
    Royston Goodacre
    Department of Chemistry, UMIST, P O Box 88, Sackville Street, Manchester M60 1QD, UK
    Trends Biotechnol 22:245-52. 2004
  27. ncbi request reprint Closed-loop, multiobjective optimization of analytical instrumentation: gas chromatography/time-of-flight mass spectrometry of the metabolomes of human serum and of yeast fermentations
    Steve O'Hagan
    School of Chemistry, University of Manchester, Faraday Building, Sackville Street, P O Box 88, Manchester M60 1QD, U K
    Anal Chem 77:290-303. 2005
    ..The evolutionary closed-loop machine learning strategy we describe is generic to any type of analytical optimization...
  28. doi request reprint Sample preparation related to the intracellular metabolome of yeast methods for quenching, extraction, and metabolite quantitation
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, University of Manchester, Manchester, United Kingdom
    Methods Enzymol 500:277-97. 2011
    ....
  29. doi request reprint Metabolic profiling of meat: assessment of pork hygiene and contamination with Salmonella typhimurium
    Yun Xu
    School of Chemistry, Manchester Interdisciplinary Biocentre, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
    Analyst 136:508-14. 2011
    ..typhimurium. The analysis identified 17 metabolites of significant interest (including various types of amino acid and fatty acid) in the discrimination of pork contaminated with the pathogenic microorganism...
  30. ncbi request reprint Metabolic fingerprinting as a diagnostic tool
    David I Ellis
    University of Manchester, School of Chemistry, Manchester Interdisciplinary Biocentre, 131 Princess Street, Manchester M1 7ND, UK
    Pharmacogenomics 8:1243-66. 2007
    ..It is hoped that this review will act as a springboard for researchers and clinicians across a wide range of disciplines in this exciting era of multidisciplinary and novel approaches to disease diagnostics...
  31. ncbi request reprint HAMMER: automated operation of mass frontier to construct in silico mass spectral fragmentation libraries
    Jiarui Zhou
    College of Biomedical Engineering and Instrument Science, Zhejiang University, Hangzhou 310027, China, School of Biosciences, University of Birmingham, Birmingham, B15 2TT, UK, HighChem, Ltd, Leskova 11, 81104 Bratislava, Slovakia, Shenzhen City Key Laboratory of Embedded System Design, College of Computer Science and Software Engineering, School of Medicine, Shenzhen University, Shenzhen 518060, China and School of Computer Science, University of Birmingham, Birmingham, B15 2TT, UK
    Bioinformatics 30:581-3. 2014
    ....
  32. doi request reprint A metabolomics investigation into the effects of HIV protease inhibitors on HPV16 E6 expressing cervical carcinoma cells
    Dong Hyun Kim
    School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
    Mol Biosyst 10:398-411. 2014
    ..Finally, intracellular drug levels were quantified, which suggested in the case of lopinavir that increased activity of membrane transporters may contribute to the drug sensitivity of HPV infected cells. ..
  33. doi request reprint Liquid chromatography-mass spectrometry calibration transfer and metabolomics data fusion
    Andrew A Vaughan
    School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom
    Anal Chem 84:9848-57. 2012
    ..99) was found to improve upon a calibration transfer method based on partial least-squares regression (R = 0.94)...
  34. doi request reprint Effective quenching processes for physiologically valid metabolite profiling of suspension cultured Mammalian cells
    Christopher A Sellick
    Faculty of Life Sciences, The University of Manchester, Michael Smith Building, Oxford Road, Manchester M139PT, UK
    Anal Chem 81:174-83. 2009
    ..This represents a key feature for any metabolomic study with suspension cultured mammalian cells and provides confidence in the validity of subsequent data analysis and modeling procedures...
  35. ncbi request reprint Dupuytren's disease metabolite analyses reveals alterations following initial short-term fibroblast culturing
    Samrina Rehman
    Doctoral Training Centre ISBML, The Manchester Centre for Integrative Systems Biology, Manchester Institute of Biotechnology, University of Manchester, Manchester, M1 7DN, UK
    Mol Biosyst 8:2274-88. 2012
    ..Experimental conditions have been identified in which these DD data are reproducible. The experimental reproducibility will be useful in DD diagnostics and for DD systems biology...
  36. doi request reprint Proof-of-principle study to detect metabolic changes in peritoneal dialysis effluent in patients who develop encapsulating peritoneal sclerosis
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology and School of Chemistry, Manchester Interdisciplinary Biocentre, University of Manchester, Manchester, UK
    Nephrol Dial Transplant 27:2502-10. 2012
    ..Prolonged peritoneal dialysis (PD) therapy can result in the development of encapsulating peritoneal sclerosis (EPS), characterized by extensive sclerosis of the peritoneum with bowel adhesions often causing obstruction...
  37. doi request reprint Mass spectrometry in systems biology an introduction
    Warwick B Dunn
    Manchester Centre for Integrative Systems Biology, Manchester Interdisciplinary Biocentre, University of Manchester, Manchester, United Kingdom
    Methods Enzymol 500:15-35. 2011
    ..Here, the role of mass spectrometry in systems biology will be assessed, the advantages and disadvantages discussed, and the instrument configurations available described. Finally, general applications will be briefly reviewed...
  38. doi request reprint Assessment of adaptive focused acoustics versus manual vortex/freeze-thaw for intracellular metabolite extraction from Streptomyces lividans producing recombinant proteins using GC-MS and multi-block principal component analysis
    Yankuba Kassama
    School of Chemistry, University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom
    Analyst 135:934-42. 2010
    ....
  39. doi request reprint Fit-for-purpose quenching and extraction protocols for metabolic profiling of yeast using chromatography-mass spectrometry platforms
    Catherine L Winder
    School of Chemistry, Manchester Centre for Integrative Systems Biology, Manchester Interdisciplinary Biocentre, University of Manchester, Manchester, UK
    Methods Mol Biol 759:225-38. 2011
    ..Extraction of intracellular metabolites is performed using multiple freeze/thaw cycles in a 60:40 (v/v) methanol:water solution at temperatures lower than 0 °C...
  40. pmc A novel untargeted metabolomics correlation-based network analysis incorporating human metabolic reconstructions
    Helen L Kotze
    School of Chemistry, Manchester Institute of Biotechnology, University of Manchester, Manchester M1 7DN, UK
    BMC Syst Biol 7:107. 2013
    ....
  41. pmc Metabolomic analysis of rat serum in streptozotocin-induced diabetes and after treatment with oral triethylenetetramine (TETA)
    Marta Ugarte
    School of Biomedicine and Manchester NIHR Biomedical Research Centre, AV Hill Building, The University of Manchester, Oxford Road, Manchester, M13 9PL, UK
    Genome Med 4:35. 2012
    ..Triethylenetetramine (TETA) is one such experimental therapeutic that acts to chelate excess copper (II) in diabetic tissues and reduce oxidative stress and cellular damage...
  42. pmc Further developments towards a genome-scale metabolic model of yeast
    Paul D Dobson
    School of Chemistry, The University of Manchester, Manchester M13 9PL, UK
    BMC Syst Biol 4:145. 2010
    ....
  43. ncbi request reprint Huntington disease patients and transgenic mice have similar pro-catabolic serum metabolite profiles
    Benjamin R Underwood
    Department of Medical Genetics, Cambridge Institute for Medical Research, University of Cambridge, Addenbrooke s Hospital, UK
    Brain 129:877-86. 2006
    ....
  44. doi request reprint Relatedness of medically important strains of Saccharomyces cerevisiae as revealed by phylogenetics and metabolomics
    Donald A MacKenzie
    National Collection of Yeast Cultures, Institute of Food Research, Norwich Research Park, Colney, Norwich NR4 7UA, UK
    Yeast 25:501-12. 2008
    ..This study confirmed the link between a subset of clinical isolates and baking or probiotic strains but also highlighted that in general the clinical strains were more diverse at both the genomic and metabolic levels...
  45. doi request reprint Genomics in cardiac metabolism
    Jane Lise Samuel
    U689 INSERM, Hopital Lariboisiere, 41 Bd de la Chapelle, 75475 Paris Cedex 10, France
    Cardiovasc Res 79:218-27. 2008
    ....