Santiago Schnell

Summary

Affiliation: University of Oxford
Country: UK

Publications

  1. ncbi request reprint Clock and induction model for somitogenesis
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford, United Kingdom
    Dev Dyn 217:415-20. 2000
  2. ncbi request reprint Enzyme kinetics at high enzyme concentration
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford, U K
    Bull Math Biol 62:483-99. 2000
  3. ncbi request reprint Time-dependent closed form solutions for fully competitive enzyme reactions
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford, U K
    Bull Math Biol 62:321-36. 2000
  4. ncbi request reprint A fast method to estimate kinetic constants for enzyme inhibitors
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford UK
    Acta Biotheor 49:109-13. 2001
  5. ncbi request reprint Models for pattern formation in somitogenesis: a marriage of cellular and molecular biology
    Santiago Schnell
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
    C R Biol 325:179-89. 2002
  6. ncbi request reprint The condition for pseudo-first-order kinetics in enzymatic reactions is independent of the initial enzyme concentration
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
    Biophys Chem 107:165-74. 2004
  7. ncbi request reprint Reaction kinetics in intracellular environments with macromolecular crowding: simulations and rate laws
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford, UK
    Prog Biophys Mol Biol 85:235-60. 2004
  8. pmc Mathematical models for somite formation
    Ruth E Baker
    Centre for Mathematical Biology, Mathematical Institute, University of Oxford, 24 29 St Giles, Oxford OX1 3LB, United Kingdom
    Curr Top Dev Biol 81:183-203. 2008
  9. doi request reprint Waves and patterning in developmental biology: vertebrate segmentation and feather bud formation as case studies
    Ruth E Baker
    Centre for Mathematical Biology, University of Oxford, UK
    Int J Dev Biol 53:783-94. 2009
  10. ncbi request reprint A mathematical investigation of a Clock and Wavefront model for somitogenesis
    R E Baker
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford, OX1 3LB, UK
    J Math Biol 52:458-82. 2006

Collaborators

Detail Information

Publications25

  1. ncbi request reprint Clock and induction model for somitogenesis
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford, United Kingdom
    Dev Dyn 217:415-20. 2000
    ..This behaviour is not easily explained by the existing theoretical models. We present a new model for somitogenesis that can account for this behaviour and is consistent with previous experimental observations...
  2. ncbi request reprint Enzyme kinetics at high enzyme concentration
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford, U K
    Bull Math Biol 62:483-99. 2000
    ..Finally, a new necessary criterion is found that ensures the validity of the reverse quasi-steady-state assumption. This is verified numerically...
  3. ncbi request reprint Time-dependent closed form solutions for fully competitive enzyme reactions
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford, U K
    Bull Math Biol 62:321-36. 2000
    ..The validity of the quasi-steady-state approximation on which the present framework is based is also revised...
  4. ncbi request reprint A fast method to estimate kinetic constants for enzyme inhibitors
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford UK
    Acta Biotheor 49:109-13. 2001
    ..It is based on a new theoretical formalism in terms of concentrations that dismisses the requirement of estimating initial velocities. Expressions for the time evolution of the concentrations of all the reactants are also given...
  5. ncbi request reprint Models for pattern formation in somitogenesis: a marriage of cellular and molecular biology
    Santiago Schnell
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
    C R Biol 325:179-89. 2002
    ..We also postulate a model to account for the recently observed spatio-temporal dynamics at the molecular level...
  6. ncbi request reprint The condition for pseudo-first-order kinetics in enzymatic reactions is independent of the initial enzyme concentration
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
    Biophys Chem 107:165-74. 2004
    ..A phase-plane analysis allows the derivation of a new condition for its validity that is directly linked to the reaction efficiency, and contrary to widely established knowledge, is independent of the initial enzyme concentration...
  7. ncbi request reprint Reaction kinetics in intracellular environments with macromolecular crowding: simulations and rate laws
    S Schnell
    Centre for Mathematical Biology, Mathematical Institute, Oxford, UK
    Prog Biophys Mol Biol 85:235-60. 2004
    ..We present a modification to fractal-like kinetics following the Zipf-Mandelbrot distribution which will enable the modelling and analysis of biochemical reactions occurring in crowded intracellular environments...
  8. pmc Mathematical models for somite formation
    Ruth E Baker
    Centre for Mathematical Biology, Mathematical Institute, University of Oxford, 24 29 St Giles, Oxford OX1 3LB, United Kingdom
    Curr Top Dev Biol 81:183-203. 2008
    ..We conclude with a brief discussion of the state of modeling in the field and current challenges which need to be overcome in order to further our understanding in this area...
  9. doi request reprint Waves and patterning in developmental biology: vertebrate segmentation and feather bud formation as case studies
    Ruth E Baker
    Centre for Mathematical Biology, University of Oxford, UK
    Int J Dev Biol 53:783-94. 2009
    ..We outline mathematical models to describe each patterning mechanism, present the results of numerical simulations and discuss the validity of each model in relation to our example patterning processes...
  10. ncbi request reprint A mathematical investigation of a Clock and Wavefront model for somitogenesis
    R E Baker
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford, OX1 3LB, UK
    J Math Biol 52:458-82. 2006
    ..We can also show that a simplification of the model provides a mechanism for predicting the anomalies resulting from perturbation of the wavefront...
  11. ncbi request reprint Mathematical and computational techniques to deduce complex biochemical reaction mechanisms
    E J Crampin
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX 1 3LB, UK
    Prog Biophys Mol Biol 86:77-112. 2004
    ....
  12. ncbi request reprint The mechanism distinguishability problem in biochemical kinetics: the single-enzyme, single-substrate reaction as a case study
    Santiago Schnell
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
    C R Biol 329:51-61. 2006
    ....
  13. ncbi request reprint Stochastic approaches for modelling in vivo reactions
    T E Turner
    Oxford Centre for Industrial and Applied Mathematics, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
    Comput Biol Chem 28:165-78. 2004
    ..We then describe recent efforts to include the fluctuation effects caused by the structural organisation of the cytoplasm and the limited diffusion of molecules due to macromolecular crowding...
  14. ncbi request reprint A mathematical formulation for the cell-cycle model in somitogenesis: analysis, parameter constraints and numerical solutions
    D McInerney
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
    Math Med Biol 21:85-113. 2004
    ..The analysis also provides a greater understanding of the signalling process controlling somite formation and allows us to understand which parameters influence somite length...
  15. ncbi request reprint A clock and wavefront mechanism for somite formation
    R E Baker
    Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
    Dev Biol 293:116-26. 2006
    ..We also show that the model can mimic the anomalies formed when progression of the wavefront is disturbed and make some experimental predictions that can be used to test the hypotheses underlying the model...
  16. pmc Coordinated action of N-CAM, N-cadherin, EphA4, and ephrinB2 translates genetic prepatterns into structure during somitogenesis in chick
    James A Glazier
    Biocomplexity Institute and Department of Physics, 727 East Third Street, Indiana University, Bloomington, Indiana 47405, USA
    Curr Top Dev Biol 81:205-47. 2008
    ..Since different models of determination yield the same, experimentally-observed, distribution of adhesion and repulsion molecules, the patterning is independent of the details of this mechanism...
  17. doi request reprint Reactant stationary approximation in enzyme kinetics
    Sonya M Hanson
    Department of Physics and Astronomy, University of Southern California, Los Angeles, California 90089 0484, USA
    J Phys Chem A 112:8654-8. 2008
    ..We discuss the consequence of this result for the determination of reaction parameters in enzyme catalyzed reactions...
  18. pmc From segment to somite: segmentation to epithelialization analyzed within quantitative frameworks
    Paul M Kulesa
    Stowers Institute for Medical Research, Kansas City, Missouri 64110, USA
    Dev Dyn 236:1392-402. 2007
    ..In this short review, we present two quantitative frameworks that address the morphogenesis from segment to somite and discuss recent data of segmentation and epithelialization...
  19. pmc Can tissue surface tension drive somite formation?
    Ramon Grima
    Complex Systems Group, Indiana University School of Informatics and Biocomplexity Institute, Eigenmann Hall 906, 1900 East Tenth Street, Bloomington, IN 47406, USA
    Dev Biol 307:248-57. 2007
    ..We propose a simple chemotactic mechanism that together with heightened adhesion can account for the morphological changes in the time allotted for somite formation...
  20. ncbi request reprint Reconstructing biochemical pathways from time course data
    Jeyaraman Srividhya
    Indiana University School of Informatics and Biocomplexity Institute, Bloomington, IN 47406, USA
    Proteomics 7:828-38. 2007
    ..We demonstrate that our new methodology reconstructs the chemical reaction steps and connectivity of the glycolytic pathway of Lactococcus lactis from time course experimental data...
  21. ncbi request reprint A test for measuring the effects of enzyme inactivation
    Santiago Schnell
    Complex Systems Group, Indiana University School of Informatics, 1900 East Tenth Street, Bloomington, IN 47406, USA
    Biophys Chem 125:269-74. 2007
    ..We employ this methodology to estimate the inactivation constant for the arsenate reductase catalyzed production of arsenite with appreciable enzyme inactivation...
  22. pmc Unraveling the nature of the segmentation clock: Intrinsic disorder of clock proteins and their interaction map
    Sourav Roy
    Indiana University School of Informatics, 1900 East Tenth Street, Bloomington, IN 47406, USA
    Comput Biol Chem 30:241-8. 2006
    ..Predicted interactions are in agreement with gene knock-out studies available in the literature...
  23. ncbi request reprint Why substrate depletion has apparent first-order kinetics in enzymatic digestion
    J Srividhya
    Indiana University School of Informatics and Biocomplexity Institute, 1900 East Tenth Street, Bloomington, IN 47406, USA
    Comput Biol Chem 30:209-14. 2006
    ..Also, our results provide an explanation for experimental observations and suggest a new experimental protocol that could reveal information on the mechanism of digestion...
  24. pmc A multiscale mathematical model of cancer, and its use in analyzing irradiation therapies
    Benjamin Ribba
    Institute for Theoretical Medicine and Clinical Pharmacology Department, Faculty of Medicine R T H Laennec, University of Lyon, Paradin St, P O B 8071, 69376 Lyon Cedex 08, France
    Theor Biol Med Model 3:7. 2006
    ..Radiotherapy outcomes are usually predicted using the Linear Quadratic model. However, this model does not integrate complex features of tumor growth, in particular cell cycle regulation...
  25. ncbi request reprint New approaches to modelling and analysis of biochemical reactions, pathways and networks
    Edmund J Crampin
    Prog Biophys Mol Biol 86:1-4. 2004