Last updated: Nov 1, 2006
Publications from 2005-2006
Articles Published in Refereed Publications
Bernard S, Cajavek B, Pujo-Menjouet L, Mackey MC, Herzel H (2006) Modeling
transcriptional feedback loops: The role of Gro/TLE1 in Hes1 oscillations,
Phil. Trans. R. Soc. A 364: 1155-1170.
Cytrynbaum EN, Rodionov V, Mogilner A (2006) Nonlocal mechanism of self-
organization and centering of microtubule asters. Bull Math Biol, 68:1053-1072.
Dawes AT, Ermentrout GB, Cytrynbaum EN, Edelstein-Keshet L (2006) Actin filament branching and protrusion velocity in a simple 1D model of a motile cell, J. theor. Biol. 242 (2): 265-279.
Dawes AT, Edelstein-Keshet L (2006) Phosphoinositides and Rho proteins spatially
regulate actin polymerization to initiate and maintain directed movement in a 1D model
of a motile cell, Biophys J., accepted for publication.
Foley C, Bernard S, Mackey MC (2006) Cost-effective G-CSF therapy strategies for
cyclical neutropenia: Mathematical modelling based hypotheses, J. Theor. Biol. 238: 754-763.
Gilchrist MA, Coombs D (2006) Evolution of virulence: Interdependence, constraints and
selection using nested models. Theor. Pop. Biol. 69:145-153
Glover CH, Marin M, Eaves CJ, Helgason CD, Piret JM, Bryan J (2006)
meta-analysis of mouse embryonic stem cell gene
expression kinetics reveals consistent early change of a small gene set
under differentiating conditions,
PLoS Computational Biology, in press.
He X, Coombs D, Myszka DG, Goldstein B, (2006) Competition between solution and
surface receptors for ligand: blocking rebinding during dissociation in a Biacore flow
cell. Bull. Math. Biol. 68(5) :1125-1150.
Khadra A, Li YX (2006a) A Model for the Pulsatile Secretion of Gonadotropin-Releasing
Hormone from Synchronized Hypothalamic Neurons, Biophysical Journal, 91:74-83.
Maree AFM, Kublik R, Finegood DT, Edelstein-Keshet L (2006) Modelling the onset of
Type 1 Diabetes: can impaired macrophage phagocytosis make the difference between
health and disease? Philosophical Transactions of the Royal Society A, 364, 1267-1282.
Maree AFM, Santamaria P, Edelstein-Keshet L (2006) Modeling competition among
CD8+ T cells in autoimmune diabetes: implications for antigen-specific therapy. International Immunology 18(7): 1067 - 1077.
Maree AFM, Jilkine A, Dawes AT, Edelstein-Keshet L (2006) Polarization and movement of keratocytes: a multiscale modelling approach. Bull. Math. Biol 68 (5): 1169-1211.
Mackey MC, Ou C, Pujo-Menjouet L, Wu J. (2006) Periodic oscillations of blood cell
populations in chronic myelogenous leukemia, SIAM J. Math. Anal. 38(1): 166-187.
Mackey MC*, Tyran-Kaminska M (2006) Deterministic Brownian motion: the effects of perturbing a dynamical system by a chaotic semi-dynamical system, Physics Reports 422: 167-222.
Mackey MC*, Tyran-Kaminska M (2006) Noise and conditional entropy evolution. Physica A 365: 360-382.
Mackey MC*, Tyran-Kaminska M (2006) Temporal behaviour of the conditional and Gibbs' entropies, J Stat Phys 124.(online)
O'Brien BA, Geng X, Orteu CH, Huang Y, Ghoreishi M, Zhang Y, Bush JA, Li G,
Finegood DT, Dutz JP (2006) A deficiency in the in vivo clearance of apoptotic cells is a
feature of the NOD mouse. J. Autoimmun. 26: 104-115.
Utzny C, Coombs D, Muller S, Valitutti S (2006) Analysis of peptide/MHC induced TCR
downregulation: deciphering the triggering kinetics, Cell Biochemistry and
Biophysics 46:101-112.
* NOTE: These papers arose from research motivated by questions about irreversibility that grew out of work on gene regulatory networks. Hence they are listed here as MITACS-related publications.
Other published refereed contributions
Finegood DT, Komba M, Atkinson L (2006) Apoptosis, phagocytosis and beta- cell directed Autoimmunity. In: Commentaries on Perspectives in Diabetes. Vol 3. Robertson RP, editor, in press.
Published non-refereed contributions:
Theses
Colleen Ball, MSc thesis (UBC) 2006 Understanding pathogen selection pressures at the
within and between-host levels. (Supervisor: Coombs)
Arshad Chaudhry, Ph.D. Thesis (UBC) 2006 Analysis of stem and progenitor cell
responses to variations in bioprocess culture variables. (Supervisor: Piret)
Adriana Dawes, PhD Thesis (UBC) 2006, Phosphoinositides and Rho Proteins Conspire
to Spatially Regulate Actin Polymerization in Motile Cells. (supervisor: Keshet)
Published Abstracts:
Colleen Ball (2005) Modeling Virus Competition Dynamics Within a Single Host.
American Society for Cell Biology Annual Meeting, San Francisco, CA
(December 2005).
Omer Dushek (2005) Modeling TCR Mobility and T Cell Repolarization. American
Society for Cell Biology Annual Meeting, San Francisco, CA (December 2005).
Raibatak Das (2005) Automated Real-Time Image Cross-Correlation Analysis of Mast
Cell Signaling Reveals Detailed Dynamics of Early Signaling Events. American
Society for Cell Biology Annual Meeting, San Francisco, CA (December 2005).
Articles Submitted to Refereed Publications
Ball CL, Gilchrist MA, Coombs D. (2006) Modeling within-host evolution of HIV:
Mutation, competition and strain replacement. Submitted.
Coombs D, Ball CL, Gilchrist MA (2006) Resolving the importance of within- and
between-host selection pressures on pathogen evolution. Submitted.
Cytrynbaum EN, Marshall B (2006) A Polymer Model Explains MinDE Dynamics in E.
coli Cell Division. Biophys J, submitted.
Colijn C, Fowler AC, Mackey MC (2005) High frequency spikes in long period blood
cell oscillations, J. Math. Biol., submitted.
Colijn C, Mackey MC (2005) Bifurcation and bistability in a model of hematopoietic
regulation, SIAM J. App. Dynam. Sys., submitted.
Dushek O, Coombs D (2006) Improving parameter estimation for cell surface FRAP
data. Submitted.
Jilkine A, Maree AFM, Edelstein-Keshet L (2006) Mathematical model for spatial
segregation of the Rho-family GTPases based on inhibitory crosstalk, submitted
Khadra A, Li YX (2006b) Robust rhythmogenesis in endocrine neurons via autocrine
regulations in a common pool of extracellular hormone, submitted to the Journal of
Neuroscience.
Lei J, Mackey MC (2006) Moment stability of stochastic differential delay equations,
SIAM Journal of Applied Mathematics, submitted.
Mahaffy JM, Edelstein-Keshet L (2006) Modeling cyclic waves of circulating T-cells in
autoimmune diabetes, submitted.
In preparation:
Khadra A, Li YX, Stability analysis of synchronized secretion of GnRH hormone by
Coupled Hypothalamic Neurons, under preparation.
Konorov, SO, Glover CH, Piret, JM, Schulze, HG, Blades, MW, Turner, RFB (2006). In
Situ Coherent Anti-Stokes Raman Microscopy of Living Embryonic Stem Cells, 95%
complete
Lu M, Glover CH, Humphries RK, Piret JM, Helgason CD (2005) The role of c-kit in
maintaining murine embryonic stem cells, 90% complete
Chaudhry MAS, Bowen BD, Eaves CJ, Piret JM (2005) Medium pH and osmolality
influence the proliferation and differentiation responses of murine embryonic stem cells,
to be submitted to Biotechnology & Bioengineering, 80% complete
Chaudhry MAS, O'Connor M, Bowen BD, Eaves CJ, Piret JM, Basal medium and serum
substitutes influence the proliferation and differentiation of murine embryonic stem cells,
to be submitted to Biotechnology Progress, 90% complete
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