R Steuer

Summary

Affiliation: University of Potsdam
Country: Germany

Publications

  1. ncbi The mutual information: detecting and evaluating dependencies between variables
    R Steuer
    University Potsdam, Nonlinear Dynamics Group, Germany
    Bioinformatics 18:S231-40. 2002
  2. ncbi A gentle guide to the analysis of metabolomic data
    Ralf Steuer
    Institute of Biochemistry and Biology, University of Potsdam, Germany
    Methods Mol Biol 358:105-26. 2007
  3. ncbi Estimating mutual information using B-spline functions--an improved similarity measure for analysing gene expression data
    Carsten O Daub
    Max Planck Institute of Molecular Plant Physiology, Potsdam, 14424, Germany
    BMC Bioinformatics 5:118. 2004
  4. ncbi From structure to dynamics of metabolic pathways: application to the plant mitochondrial TCA cycle
    Ralf Steuer
    University Potsdam, Institute for Biochemistry and Biology, Haus 20, Germany
    Bioinformatics 23:1378-85. 2007
  5. ncbi Validation and functional annotation of expression-based clusters based on gene ontology
    Ralf Steuer
    University Potsdam, Institute for Biochemistry and Biology, Karl Liebknecht Strasse 24 25, Haus 20, 14476 Potsdam, Germany
    BMC Bioinformatics 7:380. 2006
  6. ncbi Structural kinetic modeling of metabolic networks
    Ralf Steuer
    Institute for Physics, Nonlinear Dynamics Group, University Potsdam, 14469 Potsdam, Germany
    Proc Natl Acad Sci U S A 103:11868-73. 2006
  7. ncbi Review: on the analysis and interpretation of correlations in metabolomic data
    Ralf Steuer
    University Potsdam, Insitute of Physics, Am Neuen Palais 10, Haus 19, 14469 Potsdam, Germany
    Brief Bioinform 7:151-8. 2006
  8. ncbi Effects of stochasticity in models of the cell cycle: from quantized cycle times to noise-induced oscillations
    Ralf Steuer
    Nonlinear Dynamics Group, Potsdam University, Institute of Physics, Am Neuen Palais 10, Haus 19, Potsdam 14469, Germany
    J Theor Biol 228:293-301. 2004
  9. ncbi Constructive effects of fluctuations in genetic and biochemical regulatory systems
    Ralf Steuer
    Institut für Physik der Universität Potsdam, Arbeitsgruppe Nichtlineare Dynamik, Am Neuen Palais 10, Haus 19, 14469 Potsdam, Germany
    Biosystems 72:241-51. 2003
  10. ncbi Interpreting correlations in metabolomic networks
    R Steuer
    Arbeitsgruppe Nichtlineare Dynamik, Institut für Physik der Universität Potsdam, Am Neuen Palais 10, Haus 19, 14469 Potsdam, Germany
    Biochem Soc Trans 31:1476-8. 2003

Detail Information

Publications12

  1. ncbi The mutual information: detecting and evaluating dependencies between variables
    R Steuer
    University Potsdam, Nonlinear Dynamics Group, Germany
    Bioinformatics 18:S231-40. 2002
    ..In particular when dealing with small datasets, finite sample effects and other sources of potentially misleading results have to be taken into account...
  2. ncbi A gentle guide to the analysis of metabolomic data
    Ralf Steuer
    Institute of Biochemistry and Biology, University of Potsdam, Germany
    Methods Mol Biol 358:105-26. 2007
    ..The chapter is accompanied by a webpage, describing the application of all algorithms in a ready-to-use format...
  3. ncbi Estimating mutual information using B-spline functions--an improved similarity measure for analysing gene expression data
    Carsten O Daub
    Max Planck Institute of Molecular Plant Physiology, Potsdam, 14424, Germany
    BMC Bioinformatics 5:118. 2004
    ..Since mutual information is defined in terms of discrete variables, its application to continuous data requires the use of binning procedures, which can lead to significant numerical errors for datasets of small or moderate size...
  4. ncbi From structure to dynamics of metabolic pathways: application to the plant mitochondrial TCA cycle
    Ralf Steuer
    University Potsdam, Institute for Biochemistry and Biology, Haus 20, Germany
    Bioinformatics 23:1378-85. 2007
    ..Our analysis also serves as a general example how to elucidate the transition from the structure to the dynamics of metabolic pathways...
  5. ncbi Validation and functional annotation of expression-based clusters based on gene ontology
    Ralf Steuer
    University Potsdam, Institute for Biochemistry and Biology, Karl Liebknecht Strasse 24 25, Haus 20, 14476 Potsdam, Germany
    BMC Bioinformatics 7:380. 2006
    ..One common approach is to look for functional annotations that are significantly enriched within a group or cluster of genes, as compared to a reference group...
  6. ncbi Structural kinetic modeling of metabolic networks
    Ralf Steuer
    Institute for Physics, Nonlinear Dynamics Group, University Potsdam, 14469 Potsdam, Germany
    Proc Natl Acad Sci U S A 103:11868-73. 2006
    ..The method is exemplified on two paradigmatic metabolic systems: the glycolytic pathway of yeast and a realistic-scale representation of the photosynthetic Calvin cycle...
  7. ncbi Review: on the analysis and interpretation of correlations in metabolomic data
    Ralf Steuer
    University Potsdam, Insitute of Physics, Am Neuen Palais 10, Haus 19, 14469 Potsdam, Germany
    Brief Bioinform 7:151-8. 2006
    ..It is demonstrated that the comparative correlations analysis offers a way to exploit the observed correlations to obtain additional information about the physiological state of the system...
  8. ncbi Effects of stochasticity in models of the cell cycle: from quantized cycle times to noise-induced oscillations
    Ralf Steuer
    Nonlinear Dynamics Group, Potsdam University, Institute of Physics, Am Neuen Palais 10, Haus 19, Potsdam 14469, Germany
    J Theor Biol 228:293-301. 2004
    ..These findings will be discussed in the light of an ongoing debate on models of cell division as limit-cycle oscillators versus checkpoint mechanisms...
  9. ncbi Constructive effects of fluctuations in genetic and biochemical regulatory systems
    Ralf Steuer
    Institut für Physik der Universität Potsdam, Arbeitsgruppe Nichtlineare Dynamik, Am Neuen Palais 10, Haus 19, 14469 Potsdam, Germany
    Biosystems 72:241-51. 2003
    ..It will be demonstrated that in many typical situations biochemical and genetic regulatory systems may utilize intrinsic noise to their advantage...
  10. ncbi Interpreting correlations in metabolomic networks
    R Steuer
    Arbeitsgruppe Nichtlineare Dynamik, Institut für Physik der Universität Potsdam, Am Neuen Palais 10, Haus 19, 14469 Potsdam, Germany
    Biochem Soc Trans 31:1476-8. 2003
    ..In this mini-review, we discuss the integration of these observed correlations into metabolomic networks and their relationships with the underlying biochemical pathways...
  11. ncbi Observing and interpreting correlations in metabolomic networks
    R Steuer
    University Potsdam, Nonlinear Dynamics Group, Am Neuen Palais 10, 14469 Potsdam, Germany
    Bioinformatics 19:1019-26. 2003
    ..e. to recover the underlying enzymatic reaction network from data. The implications of our findings for other bioinformatics approaches are discussed...
  12. ncbi Computational approaches to the topology, stability and dynamics of metabolic networks
    Ralf Steuer
    Humboldt Universitat zu Berlin, Institut fur Biologie, Invalidenstr 43, 10115 Berlin, Germany
    Phytochemistry 68:2139-51. 2007
    ..Utilizing this approach, the role of feedback mechanisms in the maintenance of stability is discussed using minimal models of cellular pathways...