Research Topics
 Santiago SchnellSummaryAffiliation: University of Oxford Country: UK Publications
 Collaborators

Detail Information
Publications
 Clock and induction model for somitogenesisS Schnell
Centre for Mathematical Biology, Mathematical Institute, Oxford, United Kingdom
Dev Dyn 217:41520. 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...  Enzyme kinetics at high enzyme concentrationS Schnell
Centre for Mathematical Biology, Mathematical Institute, Oxford, U K
Bull Math Biol 62:48399. 2000..Finally, a new necessary criterion is found that ensures the validity of the reverse quasisteadystate assumption. This is verified numerically...  Timedependent closed form solutions for fully competitive enzyme reactionsS Schnell
Centre for Mathematical Biology, Mathematical Institute, Oxford, U K
Bull Math Biol 62:32136. 2000..The validity of the quasisteadystate approximation on which the present framework is based is also revised...  A fast method to estimate kinetic constants for enzyme inhibitorsS Schnell
Centre for Mathematical Biology, Mathematical Institute, Oxford UK
Acta Biotheor 49:10913. 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...  Models for pattern formation in somitogenesis: a marriage of cellular and molecular biologySantiago Schnell
Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
C R Biol 325:17989. 2002..We also postulate a model to account for the recently observed spatiotemporal dynamics at the molecular level...  The condition for pseudofirstorder kinetics in enzymatic reactions is independent of the initial enzyme concentrationS Schnell
Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
Biophys Chem 107:16574. 2004..A phaseplane 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...  Reaction kinetics in intracellular environments with macromolecular crowding: simulations and rate lawsS Schnell
Centre for Mathematical Biology, Mathematical Institute, Oxford, UK
Prog Biophys Mol Biol 85:23560. 2004..We present a modification to fractallike kinetics following the ZipfMandelbrot distribution which will enable the modelling and analysis of biochemical reactions occurring in crowded intracellular environments...  Mathematical models for somite formationRuth E Baker
Centre for Mathematical Biology, Mathematical Institute, University of Oxford, 24 29 St Giles, Oxford OX1 3LB, United Kingdom
Curr Top Dev Biol 81:183203. 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...  Waves and patterning in developmental biology: vertebrate segmentation and feather bud formation as case studiesRuth E Baker
Centre for Mathematical Biology, University of Oxford, UK
Int J Dev Biol 53:78394. 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...  A mathematical investigation of a Clock and Wavefront model for somitogenesisR E Baker
Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford, OX1 3LB, UK
J Math Biol 52:45882. 2006..We can also show that a simplification of the model provides a mechanism for predicting the anomalies resulting from perturbation of the wavefront...  Mathematical and computational techniques to deduce complex biochemical reaction mechanismsE J Crampin
Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX 1 3LB, UK
Prog Biophys Mol Biol 86:77112. 2004....  The mechanism distinguishability problem in biochemical kinetics: the singleenzyme, singlesubstrate reaction as a case studySantiago Schnell
Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
C R Biol 329:5161. 2006....  Stochastic approaches for modelling in vivo reactionsT E Turner
Oxford Centre for Industrial and Applied Mathematics, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
Comput Biol Chem 28:16578. 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...  A mathematical formulation for the cellcycle model in somitogenesis: analysis, parameter constraints and numerical solutionsD McInerney
Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
Math Med Biol 21:85113. 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...  A clock and wavefront mechanism for somite formationR E Baker
Centre for Mathematical Biology, Mathematical Institute, 24 29 St Giles, Oxford OX1 3LB, UK
Dev Biol 293:11626. 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...  Coordinated action of NCAM, Ncadherin, EphA4, and ephrinB2 translates genetic prepatterns into structure during somitogenesis in chickJames A Glazier
Biocomplexity Institute and Department of Physics, 727 East Third Street, Indiana University, Bloomington, Indiana 47405, USA
Curr Top Dev Biol 81:20547. 2008..Since different models of determination yield the same, experimentallyobserved, distribution of adhesion and repulsion molecules, the patterning is independent of the details of this mechanism...  Reactant stationary approximation in enzyme kineticsSonya M Hanson
Department of Physics and Astronomy, University of Southern California, Los Angeles, California 90089 0484, USA
J Phys Chem A 112:86548. 2008..We discuss the consequence of this result for the determination of reaction parameters in enzyme catalyzed reactions...  From segment to somite: segmentation to epithelialization analyzed within quantitative frameworksPaul M Kulesa
Stowers Institute for Medical Research, Kansas City, Missouri 64110, USA
Dev Dyn 236:1392402. 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...  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 307:24857. 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...  Reconstructing biochemical pathways from time course dataJeyaraman Srividhya
Indiana University School of Informatics and Biocomplexity Institute, Bloomington, IN 47406, USA
Proteomics 7:82838. 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...  A test for measuring the effects of enzyme inactivationSantiago Schnell
Complex Systems Group, Indiana University School of Informatics, 1900 East Tenth Street, Bloomington, IN 47406, USA
Biophys Chem 125:26974. 2007..We employ this methodology to estimate the inactivation constant for the arsenate reductase catalyzed production of arsenite with appreciable enzyme inactivation...  Unraveling the nature of the segmentation clock: Intrinsic disorder of clock proteins and their interaction mapSourav Roy
Indiana University School of Informatics, 1900 East Tenth Street, Bloomington, IN 47406, USA
Comput Biol Chem 30:2418. 2006..Predicted interactions are in agreement with gene knockout studies available in the literature...  Why substrate depletion has apparent firstorder kinetics in enzymatic digestionJ Srividhya
Indiana University School of Informatics and Biocomplexity Institute, 1900 East Tenth Street, Bloomington, IN 47406, USA
Comput Biol Chem 30:20914. 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...  A multiscale mathematical model of cancer, and its use in analyzing irradiation therapiesBenjamin 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...  New approaches to modelling and analysis of biochemical reactions, pathways and networksEdmund J Crampin
Prog Biophys Mol Biol 86:14. 2004