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Nick Monk: Publications

The list is split into parts:
theoretical and mathematical biology
theoretical physics
books
etcetera
preprints

Theoretical and Mathematical Biology

  • Jaeger, J. and Monk, N. (2015).
    Everything flows. A process perspective on life.
    EMBO Reports, 16, 1064-1067.

  • Kasprzewska, A., Carter, R., Swarup, R., Bennett, M., Monk, N., Hobbs, J.K. and Fleming, A. (2015).
    Auxin influx importers modulate serration along the leaf margin.
    The Plant Journal, 83, 705-718.

  • Hale, R., Brittle, A.L., Fisher, K.H., Monk, N.A.M. and Strutt, D. (2015).
    Cellular interpretation of the long-range gradient of Four-jointed activity in the Drosophila wing.
    eLife, 4, e05789. DOI: http://dx.doi.org/10.7554/eLife.05789.

  • Shimizu, H., Woodcock, S.A., Wilkin, M.B., Trubenová, B., Monk, N.A.M. and Baron, M. (2014).
    Compensatory flux changes within an endocytic trafficking network maintain thermal robustness of Notch signaling.
    Cell, 157, 1160-1174.
    Associated Commentary: Delidakis, C. Tempering Temperature Changes for Robust Development. Cell 157, 1010-1012 (2014).

  • Jaeger, J. and Monk, N. (2014).
    Bioattractors: Dynamical Systems Theory and the Evolution of Regulatory Processes
    Journal of Physiology, 592, 2267-2281.

  • Savage, N., Yang, T.J.W., Chen, C.Y., Lin, K.-L., Monk, N.A.M. and Schmidt, W. (2013).
    Positional signaling and expression of ENHANCER OF TRY AND CPC1 are tuned to increase root hair density in response to phosphate deficiency in Arabidopsis thaliana
    PLoS ONE, 8(10): e75452. doi:10.1371/journal.pone.0075452.

  • Jaeger, J. and Monk, N. (2013).
    Keeping the gene in its place.
    In The Intuitive Way of Knowing. A Tribute to Brian Goodwin, ed. D. Lambert and C. Chetland.

  • Fischer, S., Houston, P., Monk, N.A.M. and Owen, M.R. (2013).
    Is a persistent global bias necessary for the establishment of planar cell polarity?
    PLoS ONE, 8(4), e60064. doi:10.1371/journal.pone.0060064

  • Jaeger, J., Irons, D. and Monk, N. (2012).
    The inheritance of process: a dynamical systems approach.
    Journal of Experimental Zoology B, 318B, 591-612. doi: 10.1002/jez.b.22468

  • Gaffney, E.A. and Monk, N.A.M., Baker, R.E. and Lee, S.Seirin (2012).
    Reply to Correspondence: No oscillations in real activator-inhibitor systems in accomplishing pattern formation.
    Bulletin of Mathematical Biology 74, 2268-2271.

  • Benítez, M., Monk, N.A.M. and Alvarez-Buylla, E. R. (2011).
    Epidermal patterning in Arabidopsis: models make a difference.
    Journal of Experimental Zoology B, 316B, 241-253.

  • Kuwabara, A., Backhaus, A., Malinowski, R., Bauch, M., Hunt, L., Nagata, T., Monk, N., Sanguinetti, G. and Fleming, A. (2011).
    A shift towards smaller cell size via manipulation of cell cycle gene expression acts to smoothen Arabidopsis leaf shape.
    Plant Physiology, 156, 2196-2206.

  • Irons, D.J., Wojcinski, A, Glise, B. and Monk, N.A.M. (2010).
    Robustness of positional specification by the Hedgehog morphogen gradient.
    Developmental Biology, 342, 180-193.

  • Backhaus, A., Kuwabara, A., Bauch, M., Monk, N., Sanguinetti, G. and Fleming, A. (2010).
    LeafProcessor: A new leaf phenotyping tool using contour bending energy and shape cluster analysis.
    New Phytologist 187, 251-261.

  • Lee, S. Seirin, Gaffney, E.A. and Monk, N.A.M. (2010).
    The influence of gene expression time delays on Gierer-Meinhardt pattern formation systems.
    Bulletin of Mathematical Biology 72, 2139-2160.

  • Schamberg, S., Houston, P., Monk, N.A.M. and Owen, M.R. (2010).
    Modelling and analysis of planar cell polarity.
    Bulletin of Mathematical Biology 72, 645-680.

  • Momiji, H. and Monk, N.A.M. (2009).
    Oscillatory Notch pathway activity in a delay model of neuronal differentiation.
    Physical Review E 80, 021930.

  • Jaeger, J. and Monk, N.A.M. (2009).
    Reverse engineering of gene regulatory networks.
    In Learning and Inference in Computational and Systems Biology, ed. N. Lawrence, M. Girolami, M. Rattray and G. Sanguinetti.

  • Savage, N. S., Walker, T., Wieckowski, Y., Schiefelbein, J., Dolan, L. and Monk, N. A. M. (2008).
    A mutual support mechanism through intercellular movement of CAPRICE and GLABRA3 can pattern the Arabidopsis root epidermis.
    PLoS Biology 6(9), e235. (doi:10.1371/journal.pbio.0060235).
    F1000 Recommended.

  • Jaeger, J., Irons, D. and Monk, N. (2008).
    Regulative feedback in pattern formation: towards a general relativistic theory of positional information.
    Development 135, 3175-3183. (doi:10.1242/dev.018697).

  • Momiji, H. and Monk, N. A. M. (2008).
    Dissecting the dynamics of the Hes1 genetic oscillator.
    Journal of Theoretical Biology 254, 784-798.

  • Bennett, M. and Monk, N. (2008).
    The flowering of systems approaches in plant and crop biology.
    New Phytologist 179, 568-570.

  • Momiji, H. and Monk, N. A. M. (2008).
    Oscillatory expression of Hes family transcription factors: insights from mathematical modelling.
    In Cellular Oscillatory Mechanisms, ed. M. Maroto and N. A. M. Monk. Landes Bioscience/Springer Science & Business Media, pp. 72-87.

  • Monk, N. A. M. (2008).
    Using mathematical models to probe dynamic expression data.
    In Practical Systems Biology, ed. A. Hetherington and C. Grierson. Taylor and Francis, pp. 93-112.

  • Irons, D. J. and Monk, N. A. M. (2007).
    Identifying dynamical modules from genetic regulatory systems: applications to the segment polarity network.
    BMC Bioinformatics 8, 413 (doi: 10.1186/1471-2105-8-413).
    F1000 Recommended.

  • Page, K. M., Monk, N. A. M. and Maini, P. K. (2007).
    Speed of reaction diffusion in embryogenesis.
    Physical Review E 76, 011902.

  • Gaffney, E. A. and Monk, N. A. M. (2006).
    Gene expression time delays and Turing pattern formation systems.
    Bulletin of Mathematical Biology 68, 99-130.

  • Veflingstad, S. R., Plahte, E. and Monk, N. A. M. (2005).
    Effect of time delay on pattern formation: competition between homogenisation and patterning.
    Physica D 207, 254-271.

  • Page, K. M., Maini, P. K. and Monk, N. A. M. (2005).
    Complex pattern formation in reaction diffusion systems with spatially-varying parameters.
    Physica D 202, 95-115.

  • Monk, N. A. M. (2004).
    Dissecting the dynamics of segment determination.
    Current Biology 14, R705-R707.

  • Monk, N. A. M. (2004).
    Asymmetric fixation.
    Nature 427, 111-112.

  • Monk, N. A. M. (2004).
    Spatial patterning in explicitly cellular environments: activity-regulated juxtacrine signalling.
    in Computing in Cells and Tissues - Perspectives and Tools of Thought, Ed. R. Paton, H. Bolouri, M. Holcombe, H. Parish and R. Tateson. Springer Series on Natural Computation.

  • Thomas, A., Cannings, R., Monk, N. A. M. and Cannings, C. (2003).
    On the structure of protein-protein interaction networks.
    Biochemical Society Transactions 31, 1491-1496.

  • Monk, N. A. M. (2003).
    Unravelling nature's networks.
    Biochemical Society Transactions 31, 1457-1461.

  • Monk, N. A. M. (2003).
    Oscillatory expression of Hes1, p53, and NF-kappaB driven by transcriptional time delays.
    Current Biology 13, 1409-1413.
    Associated Commentary: Pourquié, O. and Goldbeter, A. Segmentation Clock: Insights from Computational Models. Current Biology 13, R632-R634 (2003).

  • Page, K., Maini, P. K. and Monk, N. A. M. (2003).
    Pattern formation in spatially heterogeneous Turing reaction diffusion models.
    Physica D 181, 80-101.

  • Page, K. M., Maini, P. K., Monk, N. A. M. and Stern, C. D. (2001).
    A model of primitive streak initiation in the chick embryo.
    Journal of Theoretical Biology 208, 419-438.

  • Monk, N. A. M. (2000).
    Elegant hypothesis and inelegant fact in developmental biology.
    Endeavour 24, 170-173.

  • Monk, N. A. M., Sherratt, J. A. and Owen, M. R. (2000).
    Spatiotemporal patterning in models of juxtacrine intercellular signalling with feedback.
    in Mathematical Models for Biological Pattern Formation. (Ed. P. K. Maini and H. G. Othmer), pp. 165-192, Springer.

  • Monk, N. A. M. (1998).
    Restricted-range gradients and travelling fronts in a model of juxtacrine cell relay.
    Bulletin of Mathematical Biology 60, 901-918.

  • Monk, N. A. M. (1997).
    Cell communities and robustness in development.
    Bulletin of Mathematical Biology 59, 1183-1189.

  • Monk, N. A. M. (1997).
    The community effect and ectoderm-mesoderm interaction inXenopus muscle differentiation.
    Bulletin of Mathematical Biology 59, 409-425.

  • Collier, J. R., Monk, N. A. M., Maini, P. K. and Lewis, J. H. (1996).
    Pattern formation by lateral inhibition with feedback: a mathematical model of Delta-Notch intercellular signalling.
    Journal of Theoretical Biology 183, 429-446.


Theoretical Physics

  • Monk, N. A. M. and Hiley, B. J. (1998).
    A unified algebraic approach to quantum theory.
    Foundations of Physics Letters 11, 371-377.

  • Monk, N. A. M. (1998).
    Towards a quantum pregeometric description of space-time.
    Endeavour 22, 27-30.

  • Monk, N. A. M. (1997).
    Conceptions of space-time: Problems and possible solutions.
    Studies in History and Philosophy of Modern Physics 28, 1-34.

  • Hiley, B. and Monk, N. (1993).
    Quantum phase space and the discrete Weyl algebra.
    Modern Physics Letters A 8, 3625-3633.


Books

  • Cellular Oscillatory Mechanisms, ed. M. Maroto and N. A. M. Monk. Austin/New York: Landes Bioscience/Springer Science & Business Media (2008).


etcetera

  • Whitfield, T.T. and Monk, N. (2014).
    Julian Hart Lewis, F.R.S. (1946-2014).
    Developmental Cell 29, 507-509.

  • Review of Biological Physics of the Developing Embryo, by Gabor Forgacs and Stuart A. Newman (Cambridge University Press, 2005).
    BSDB Newsletter 27(2), 18-19 (2006). Reprint (pdf).

  • Monk, N. and Lawrence, N. (2003).
    Unravelling Nature's Networks (meeting report).
    The Biochemist 25(6), 40-41.

  • Review of Imaginal Discs: The Genetic and Cellular Logic of Pattern Formation, by Lewis I. Held, Jr. (Cambridge University Press, 2002).
    BSDB Newsletter 24(1), 17-18 (2003). Read it here.


Preprints

  • Momiji, H. and Monk, N.A.M. (2009).
    Oscillatory Notch pathway activity in a delay model of neuronal differentiation.
    http://arxiv.org/abs/0902.1484

  • Schamberg, S., Houston, P., Monk, N.A.M. and Owen, M.R. (2009).
    Modelling and analysis of planar cell polarity.
    http://eprints.nottingham.ac.uk/1002/

  • Irons, D. and Monk, N. (2006).
    Can developmental biology inspire amorphous computing?
    Paper presented at the 2nd European Symposium on Nature-inspired Smart Information Systems, Tenerife.
    pdf preprint

  • Monk, N.A.M. (2003).
    Unravelling nature's networks.
    pdf preprint

  • Thomas, A., Cannings, R., Monk, N.A.M. and Cannings, C. (2003).
    On the structure of protein-protein interaction networks.
    pdf preprint

  • Monk, N.A.M. and Lawrence, N. (2003).
    Unravelling nature's networks (meeting report).
    pdf preprint




Last Updated: 27 July 2015

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