Selected Recent Papers

2014

  • D. S. Bassett, N. F. Wymbs, M. A. Porter, P. J. Mucha, and S. T. Grafton (2014). Cross-linked structure of network evolution. Chaos. 24:013112. (eprints)
  • A. Tsanas, M. A. Little, C. Fox and L. O. Ramig (2014). Objective automatic assessment of rehabilitative speech treatment in Parkinson's disease. IEEE. T. Neur. Sys.  Reh. E. 22:181-190. (eprints)
  • D. E. Moulton, and A. Goriely (2014). Surface growth kinematics via local curve evolution. J. Math. Biol. 68:81-108. (eprints)
  • A. Pandey, D. E. Moulton, D. Vella, D. P. Holmes (2014). Dynamics of snapping beams and jumping poppers. Europhys. Letts. 105:24001. (eprints)

2013

  • L. J. Schumacher, T. E. Woolley, and  R. E. Baker (2013). Noise-induced temporal dynamics in Turing systems. Phys. Rev. E. 87:042719. (eprints)
  • G.R. Mirams, C.J. Arthurs, M.O. Bernabeu, R. Bordas, J. Cooper, A. Corrias, Y. Davit, S-J. Dunn, A.G. Fletcher, D.G. Harvey, M.E. Marsh, J.M. Osborne, P. Pathmanathan, J. Pitt-Francis, J. Southern, N. Zemzemi and D.J. Gavaghan (2013). Chaste: an open source C++ library for computational physiology and biology. PLoS Comput. Biol. 9:e1002970. (eprints)
  • C.A. Yates and R.E. Baker (2013). The importance of the Voronoi domain partition for position-jump reaction-diffusion processes on non-uniform rectilinear lattices. Phys. Rev. E (PRE) 88:054701. (eprints)
  • G. Rosser, A.G. Fletcher, D.A. Wilkinson, J.A. de Beyer, C.A. Yates, J.P. Armitage, P.K. Maini and R.E. Baker (2013). " Novel methods for analysing bacterial tracks reveal persistence in Rhodobacter sphaeroidesPLoS. Comput. Biol. 9:e1003276. (eprints)
  • C.A. Yates and R.E. Baker (2013). Isotropic model for cluster growth on a regular lattice. Phys. Rev. E. 88:023304. (eprints)
  • C.A. Yates and G. Klingbeil (2013). Recycling random numbers in the stochastic simulation algorithm J. Chem. Phys. 138:094103.  (eprints)   
  • J. Kursawe, J. Schulz, and R. Metzler (2013). Transient aging in fractional  Brownian and Langevin-equation motion, Phys. Rev. E. 88:062124.
  • B. Lloyd-Lewis, A.G. Fletcher, T.C. Dale and H.M. Byrne (2013). Towards a quantitative understanding of the Wnt/β-catenin pathway through simulation and experiment. WIREs Syst. Biol. Med. 5:391-407. (eprints)
  • G. Rosser, A.G. Fletcher, P.K. Maini and R.E. Baker (2013). The effect of sampling rate on observed statistics in a correlated random walk. J. R. Soc. Interface. 10:20130273. (eprints)
  • J.P. Vincent, A.G. Fletcher and L.A. Baena-Lopez (2013). Mechanisms and mechanics of cell competition in epithelia. Nat. Rev. Mol. Cell Biol. 14:581-591. (eprints)
  • A.G. Fletcher, J.M. Osborne, P.K. Maini and D.J. Gavaghan (2013).  Implementing vertex dynamics models of cell populations in biology within a consistent computational framework. Prog. Biophys. Mol. Biol. 113:299–326. (eprints)
  • O.J. Maclaren, O.J. Sneyd, and E.J. Crampin (2013).  What do aquaporin knockout studies tell us about fluid transport in epithelia? J. Membrane. Biol. 246:297-305. (eprints)
  • S. Cotter T. Vejchodsky and R.Erban (2013).  Adaptive finite element method assisted by stochastic simulation of chemical systems, SIAM J. Sci. Comput. 35:B107-B131. (eprints)
  • M. Flegg, S. Rudiger and R. Erban (2013). Diffusive spatio-temporal noise in a first-passage time model for intracellular calcium release. J. Chem. Phys. 138:154103. (eprints)
  • B. Franz, M. Flegg, J. Chapman and R. Erban (2013).  Multiscale reaction-diffusion algorithms: PDE-assisted Brownian dynamics, SIAM. J. Appl. Math. 73:1224-1247. (eprints)
  • M. Schlackow, S. Marguerat, N. Proudfoot, J. Bahler, R. Erban and M. Gullerova (2013). Genome-wide analysis of poly(A) site selection in
    Schizosaccharomyces pombe, RNA. 19:1-15. (eprints)
  • K. Ishimoto, and E. A.  Gaffney (2013). Squirmer dynamics near a boundary, Phys. Rev. E. 88:062702. (eprints)
  • D. C. Markham, M. J. Simpson, P. K. Maini, E. A. Gaffney and R. E. Baker (2013).  Incorporating spatial correlations into multispecies mean-field models, Phys.  Rev. E. 88:052713. (eprints)
  • S. Seirin Lee, R. E. Baker, E. A. Gaffney, and S. M. White (2013). Optimal strategies for Aedes aegypti mosquito control via transgenic and sterile insect techniques: endemics and emerging outbreaks, J. Theor. Biol. 331:78-90. (eprints)
  • V. S. Zubkov, C. J. W. Breward and  E. A. Gaffney (2013).  Meniscal fluid dynamics near Marx's line, Bull. Math. Bio. 75:1524-1543. (eprints)
  • H. Gadêlha, E.  A. Gaffney and A. Goriely (2013). The counterbend phenomenon in flagellar axonemes and cross-linked filament bundles. P. Natl. A. Sci. 110:12180-12185. (eprints)
  • J. Belmonte-Beitia,  T. E. Woolley,  J. G. Scott,  P. K. Maini and E. A. Gaffney (2013). Modelling biological invasions: Individual to population scales at interfaces. J. Theor.Biol. 334:1-12.  (eprints)
  • M. P. Curtis and E. A. Gaffney (2013). The three sphere swimmer in a nonlinear viscoelastic medium. Phys. Rev. E. 87:043006. (eprints)
  • S. Seirin Lee, R. E. Baker, E. A. Gaffney and S. M. White (2013).  Optimal barrier zones for stopping the invasion of Aedes aegypti mosquitoes via transgenic or sterile insect techniques. J. Theor. Ecol. 6:427-442. (eprints)
  • S. L. Cotter, T. Vejchodsky, and R. Erban (2013). Adaptive finite element method assisted by stochastic simulation of chemical systems. Siam. J. Sci. Comput. 35:B107-B131. (eprints)
  • L. G. Bowden, M. J. Simpson and R. E. Baker (2013). Design and interpretation of cell trajectory assays. J. R. Soc. Interface. 10:1742-1755. (eprints)
  • G. D. Carvalho, J. A. Miranda and H. Gadelha (2013). Interfacial elastic fingering in Hele-Shaw cells: a weakly nonlinear study.  Phys. Rev. E. 88:053006. (eprints)
  • H. Gadelha, E. A. Gaffney, and A. Goriely (2013). The counterbend phenomenon in flagellar axonemes and cross-linked filament bundles. Proc. Natl. Acad. Sci. 30:12180. (eprints)
  • H. Gadelha (2013). On the optimal shape of magnetic swimmers.  Regul. Chaotic. Dyn. 18:75-84. (eprints)
  • Y. M. Lai, and M. A. Porter (2013). Noise-induced synchronization, desynchronization, and clustering in globally coupled nonidentical oscillators. Phys. Rev. E. 88:012905. (eprints)
  • D. S. Bassett, N. F. Wymbs, M.  Rombach, M. A. Porter, P. J. Mucha, and S. T. Grafton (2013). Task-based core-periphery organization of human brain dynamics, PLOS. Comput. Biol. 9:e1003171. (eprints)
  • A. V. Mantzaris, D. S. Bassett, N. F. Wymbs, E. Estrada, M. A. Porter, P. J. Mucha, S. T. Grafton and D. J. Higham (2013). Dynamic network centrality summarizes learning in the human brain. J. Complex. Networks. 1:83-92. (eprints)
  • D. S. Bassett, M. A. Porter, N. F. Wymbs, S. T. Grafton, J. M. Carlson, and P. J. Mucha (2013).  Robust detection of dynamic community structure in networks.  Chaos. 23:013142. (eprints)
  • M. Kefala, S. G. Papageorgiou, C. K. Kontos, P. Economopoulou, A, Tsanas, V. Pappa, I. G. Panayiotides, V. G. Gorgoulis, E. Patsouris and P. G. Foukas (2013). Increased expression of phosphorrylated NBSI a key molecule of the DNA damage response machinery is an adverse prognostic factor in patients with de novo myelodysplastic syndromes. Leukemia. Res. 37:1576-1582. (eprints)
  • R. Chirat, D. E. Moulton and A. Goriely (2013). Mechanical basis of morphogenesis and convergent evolution of spiny seashells.  P. Ntl. A. Sci. 110:6015-6020. (eprints)
  • D. E. Moulton and J. Lega (2013). Effect of disjoining pressure in a thin film equation with non-uniform forcing. Eur. J. Appl. Math. 24:887-920. (eprints)
  • S. O'Keefe, D. E. Moulton, S. Waters and A. Goriely (2013). Growth-induced axial buckling of a slender elastic filament embedded in an isotropic elastic matrix. Int. J. Nonlinear. Mech. 56:94-104.

2012

  • P. D. H. M. Verhaegen, J. Van Marle, A. Kuehne, H. J. Schouten, E. A. Gaffney, P. K. Maini, E. Middlekoop and P. P. M. Van Zuijlen (2012). Collagen bundle morphometry in skin & scar tissue: a novel distance mapping method provides superior measurements compared to Fourier analysis. J. Microsc. 245:82-89. (eprints)
  • M. J. Tindall, L. Dyson, K. Smallbone and P. K. Maini (2012). Modelling acidosis and the cell cycle in multicellular tumour spheroids. J. Theor. Biol. 298:107-115. (eprints)
  • S.-J. Dunn, A. G. Fletcher, S. J. Chapman, D.J. Gavaghan and J.M. Osborne (2012). Modelling the role of the basement membrane in the colonic epithelium. J. Theor. Biol. 298:82-91. (eprints)
  • A. G. Fletcher, C. J. W. Breward and S. J. Chapman (2012). Mathematical modelling of monoclonal conversion in the colonic crypt. J. Theor. Biol. 300:118-133. (eprints)
  • M. Flegg, S.J. Chapman and R. Erban (2012). The two-regime method for optimizing stochastic reaction–diffusion simulations. J. Roy. Soc. Interface 9:859-868.
  • D. Basanta, J. G. Scott, M. N. Fishman, G. E. Ayala, S. W. Hayward, and A. R. A. Anderson (2012) Investigating prostate cancer tumour-stroma interactions - clinical and biological insights from an evolutionary game. Brit. J. Cancer. 106(1):174-181. (eprints)
  • J. G. Scott (2012) Phase i trialist. Lancet. Oncol. 13(3):236. (eprints)
  • J. G. Scott, P. Kuhn, and A. R. A .Anderson (2012) Unifying metastasis--Integrating intravasation, circulation and end organ colonization.  Nat. Rev. Cancer. 12:445. (eprints)
  • G. Trichas, A. M. Smith, N. White, V. Wilkins, T. Watanbe, A. Moore, B. Joyce, J. Sugnaseelan, T. A. Rodrigues, D. Kay, R. E. Baker, P. K. Maini and S. Srinivas (2012). Multi-cellular rosettes in the mouse visceral endoderm facilitate the ordered migration of AVE cells. PLoS Biol. 10(2):e1001256. (eprints)
  • R. E. Baker and M. J. Simpson (2012). Models of collective cell motion for cell populations with different aspect ratio: diffusion, proliferation and travelling waves. Physica A 391(14):3729–3750. (eprints)
  • S. Shvartsman and R. E. Baker (2012). Mathematical models of morphogen gradients and their effects on gene expression. WIREs Dev. Biol. doi:10.1002/wdev.55. (eprints)
  • R. McLennan, L. Dyson, K.W. Prather, J. A. Morrison, R. E. Baker, P. K. Maini and P. M. Kulesa (2012). Multiscale mechanisms of cell migration during development: theory and experiment. Development 139:2935–2944. (eprints
  • A. M. Smith, R. E. Baker, D. Kay and P. K. Maini (2012). Incorporating chemical signalling factors into cell-based models of growing epithelial tissues. J. Math. Biol. 65(3):441–463. (eprints
  • A. A.  Al-Shammari,  E. A.  Gaffney and  S.  Egginton (2012).  Re-evaluating  the  use  of  voronoi  tessellations  in  the assessment of oxygen supply from capillaries in muscle. Bull. Math. Biol. 74(9): 2204-2231. (eprints)
  • G. R. Mirams, A. G. Fletcher, P. K. Maini and H.M. Byrne (2012). A theoretical investigation of the effect of proliferation and adhesion on monoclonal conversion in the colonic crypt. J. Theor. Biol. 74(9): 2204-2231. (eprints)
  • R. Dello Ioio, C. Galinha, A. G. Fletcher, S. P. Grigg, A. Molnar, S. Sabatini, D. Baulcombe, P. K. Maini and M. Tsiantis (2012). A PHABULOSA/cytokinin feedback loop controls root growth in Arabidopsis. Curr. Biol. 22:1699-1704. (eprints)
  • C.A. Yates, R.E. Baker R. Erban and P.K. Maini (2012). Going from microscopic to macroscopic on nonuniform growing domains Phys. Rev. E. 86:021921.  (eprints)
  • C.A. Yates (2012). Comparing stochastic discrete and deterministic continuum models of cell migration. ESMTB Communications 1:31-36.   
  •  R. Thompson, C.A. Yates and R.E. Baker (2012). Modelling cell migration and adhesion during development B. Math. Biol. 74:2793-2809.   (eprints)
  • T. Wood, C.A. Yates, D. Wilkinson and G. Rosser (2012). Simplified multitarget tracking using the PHD filter for microscopic video data. IEEE Trans. Circuits Syst. Video Technol. 22:702-713. (eprints)
  • O.J. Maclaren, J. Sneyd, and E.J. Crampin (2012). Efficiency of primary saliva secretion: an analysis of parameter dependence in dynamic single-cell and acinus models, with application to aquaporin knockout studies.  J. Membrane. Biol. 245:29-50. (eprints)
  • L. Palk, J. Sneyd, K. Patterson, T.J. Shuttleworth, D.I. Yule, O.J. Maclaren, and E.J. Crampin (2012). Modelling the effects of calcium waves and oscillations on saliva secretion. J. Theor. Biol. 305:45-53. (eprints)
  • R. Erban and J.Haskovec (2012). From individual to collective behaviour of coupled velocity jump processes: a locust example.  Kinet. Relate. Mod. 5:817 - 842. (eprints)
  • N. F. Wymbs, D. S. Bassett, P. J. Mucha, M. A. Porter, and S. T. Grafton (2012). Differential recruitment of the sensorimotor putamen and frontoparietal cortex during motor chunking in humans. Neurons. 74:936-946. (eprints)
  • A. C. F. Lewis, N. S. Jones, M. A. Porter and C. M. Deane (2012). What evidence is there for the homology of protein-protein interactions?  PLOS. Comput. Biol. 8:e1002645. (eprints)
  • S. Stoye, M. A. Porter, and M. S. Dawkins (2012). Synchronized lying in cattle in relation to time of day.  Livest. Sci. 149:70-73. (eprints)
  • J. P. Onnela, D. J. Fenn, S. Reid, M. A. Porter, P. J. Mucha, M. D. Fricker, and N. S. Jones (2012). Taxonomies of networks from community structure. Phys. Rev. E. 86:036104. (eprints)

     

       

      2011

       

      • S. W. Cho, S. W. Kwak, T. E. Woolley, M. J. Lee, E. J. Kim, R. E. Baker, H. J. Kim, J. S. Shin, C. Tickle, P. K. Maini and H. S. Jung(2011). Interactions between Shh, Sostdc1 and Wnt signaling and a new feedback loop for spatial patterning of the teeth. Developmen138:1807-1816. (eprints)
      • E. A. Gaffney, H. Gadelha, D. J. Smith, J. R. Blake and J. C. Kirkman-Brown (2011). Mammalian sperm motility: observation and theory. Ann. Rev. Fluid Mech. 43:501-528. (eprints)
      • A. Hamadeh, M. A. J. Roberts, E. August, P. E. McSharry, P. K. Maini, J. P. Armitage and A. Papchristodoulou(2011). Feedback control architecture and the bacterial chemotaxis network. PLoS Comput. Biol. 7.  (eprints)
      • G. Klingbeil, R. Erban, M Giles and P. K. Maini (2011). STOCHSIMGPU: Parallel stochastic simulation for the Systems Biology Toolbox 2 for MATLAB. Bioinformatics 27:1170-1171.  (eprints)
      • N. K. Martin, E. A. Gaffney, R. A. Gatenby, R. J. Gillies, I. F. Robey and P. K. Maini (2011). A mathematical model of tumour and blood pHe regulation: The HCO-3/CO2 buffering system. Math. Biosci. 230:1-11.  (eprints)
      • P. J. Murray, A. Walter, A. G. Fletcher, C. M. Edwards, M. J. Tindall and P. K. Maini (2011). Comparing a discrete and continuum model of the intestinal crypt. Phys. Biol. 8:026011.  (eprints)
      • H. Perfahl, H. M. Byrne, T. Chen, V. Estrella, T. Alarcon, A. Lapin, R. A. Gatenby, R. J. Gillies, M. C. Lloyd, P. K. Maini, M. Reuss and M. R. Owen
      • (2011). Multiscale modelling of vascular tumour growth in 3D: the roles of domain size and boundary conditions. PLoS One 6.  (eprints)
      • M. V. Plikus, R. E Baker, C. C. Chen, C. Fare, D. de la Cruz, T. Andl, P. K. Maini, S. E. Millar, R. Widelitz and C. M. Chuong (2011). Self-organizing and stochastic behaviors during the regeneration of hair stem cells. Science. 332:586.  (eprints)
      • J. W. Schofield, E. A. Gaffney, R. A. Gatenby and P. K. Maini (2011). Tumour angiogenesis: The gap between theory and experiments. J. Theor. Biol274:97-102 (eprints)
      • M. J. Simpson and R. E Baker (2011). Correcting mean-field approximations for spatially-dependent advection-diffusion-reaction processes. Phys. Rev. E 82:e041905.  (eprints)
      • M. J. Simpson, R. E. Baker and S. W. McCue (2011). Models of collective cell spreading with variable cell aspect ration: a motivation for degenerate diffusion models. Phys. Rev. E 83(2):021901. (eprints)
      • C.A. Yates and K. Burrage  (2011). Look before you leap: A confidence-based method for selecting species criticality whilst avoiding negative populations in τ-leaping J. Chem. Phys. 134:084109. (eprints)
      • C.A. Yates, R. Baker, R. Erban and P.K. Maini  (2011). Refining self-propelled particle models for collective behaviour. Can. Appl. Math. Q. 18:299-350.  (eprints)
      • S. Cotter, K. Zygalakis, I. Kevrekidis and R. Erban (2011). A constrained approach to multiscale stochastic simulation of chemically reacting systems.  J. Chem. Phys. 135(9):094102.
      • J. Lipkova, K. Zygalakis, J. Chapman and R. Erban (2011).  Analysis of brownian dynamics simulations of reversible bimolecular reactions. Siam J. Appl. Math. 71(3):714-730. (eprints)
      • C. Xue, H. Hwang, K. Painter and R. Erban (2011). Travelling waves in hyperbolic chemotaxis equations. B. Math. Biol. 73(8):1695-1733. (eprints)
      • D. S. Bassett, N. F. Wymbs, M. A. Porter, P. J. Mucha, J. M. Carlson and S. T . Grafton (2011). Dynamic reconfiguration of human brain networks during learning. Proc. Natl. Sci. 118:7641-7646. (eprints)
      • J. Sun, E. M. Bollt, M. A. Porter, and M. S. Dawkins (2011). A mathematical model for the dynamics and synchronization of cows. Phys. D. 240:1497-1509. (eprints)

       

      2010

       

      • F. Bai, R. W. Branch, D. V. Nicolau Jr, T. Pilizota, B. C. Steele, P. K. Maini and R. M. Berry (2010). Conformational spread as a mechanism for cooperativity in the bacterial flagellar switch. Science 327:685-689. (eprints)
      • R. E. Baker, C. A. Yates and R. Erban (2010). From microscopic to macroscopic descriptions of cell migration on growing domains. Bull. Math. Biol. 72:719-762 
      • (eprints)
      • B. Benazeraf, P. Francois, R. E. Baker, C. D. Little and O. L. Pourquie (2010). A random cell motility gradient downstream of FGF controls elongation of amniote embryos. Nature 466:248-252.  (eprints)
      • O. Cominetti, A. Matzavinos, S. Samarasinghe, D. Kulasiri, S. Liu, P. K. Maini and R. Erban (2010). DifFUZZY: A fuzzy clustering algorithm for complex data sets. Int. J. of Comput. Intelligence in Bioinformatics and Systems Biology 1:402-417. (eprints)
      • S. Egginton and E. A. Gaffney (2010). Tissue capillary supply - it's quality not quantity that counts! Exp. Physiol. 95:971-979.  (eprints)
      • C. Escudero, C. A. Yates, J. Buhl, I. D. Couzin, R. Erban, I. G. Kevrekidis and P. K. Maini (2010). Ergodic directional switching in mobile insect groups. Phys. Rev. E 82:011926.  (eprints)
      • H. Gadelha, E. A. Gaffney,  D. J. Smith and J. C. Kirkman-Brown (2010). Nonlinear instability in flagellar dynamics: a novel modulation mechanism in sperm migration? J. Roy. Soc. Interface 7:1689-1697.  (eprints)
      • E. A. Gaffney, J. M. Tiffany, N. Yokoi, A. J. Bron (2010). A mass and solute balance model for tear volume and osmolarity in the normal and the dry eye. Prog. Retin. Eye Res. 29:59-78.  (eprints)
      • M. D. Johnston, P. K. Maini, S. J. Chapman, C. M. Edwards and W. F. Bodmer (2010). On the proportion of cancer stem cells in a tumour. J. Theor. Biol. 266:708-711.  (eprints)
      • A. Madzvamuse, E. A. Gaffney and P. K. Maini (2010). Stability analysis of non-autonomous reaction-diffusion systems: the effects of growing domains. J. Math. Biol. 61:133-164.  (eprints)
      • N. K. Martin, E. A. Gaffney, R. A. Gatenby and P. K. Maini (2010). Tumour-stromal interactions in acid-mediated invasion: a mathematical model. J. Theor. Biol. 267:461-470.  (eprints)
      • N. K. Martin, E. A. Gaffney, R. A. Gatenby and P. K. Maini (2010). Leaky vessels as a potential source of stromal acidification in tumours. J. Theor. Biol. 267:454-460.  (eprints)
      • P. J. Murray, J. W. Kang, G. R. Mirams, S. Y. Shin, H. M. Byrne, P. K. Maini and K. H. Cho (2010). Modelling spatially regulated β-catenin dynamics and invasion in intestinal crypts. Biophys. J. 99:716-725.  (eprints)
      • J. M. Osborne, A. Walter, S. K. Kershaw, G. R. Mirams, A. G. Fletcher, P. Pathmanathan, D. Gavaghan, O. E. Jensen, P. K. Maini and H. M. Byrne (2010). A hybrid approach to multi-scale modelling of cancer. Phil. Trans. R. Soc. A. 368:5013-5028.  (eprints)
      • S. Seirin Lee and E. A. Gaffney (2010). Aberrant behaviours of reaction diffusion self-organisation models on growing domains in the presence of gene expression time delays. Bull. Math. Biol. 72:2161-2179.  (eprints)
      • S. Seirin Lee, E. A. Gaffney and N. A. M. Monk (2010). The influence of gene expression time delays on Gierer-Meinhardt pattern formation systems. Bull. Math. Biol. 72:2139-2160.  (eprints)
      • H. Shum, E. A. Gaffney and D. J. Smith (2010). Modelling bacterial behaviour close to a no-slip plane boundary: the influence of bacterial geometry. Proc. Roy. Soc. A 466:1725-1748.  (eprints)
      • K. Smallbone, P. K. Maini and R. A. Gatenby (2010). Episodic, transient systemic acidosis delays evolution of the malignant phenotype: possible mechanism for cancer prevention by increased physical activity. Biology Direct 5:22.  (eprints)
      • T. E. Woolley, R. E. Baker, P. K. Maini, J. L. Aragon and R. Barrio (2010). Analysis of stationary droplets in a generic Turing reaction-diffusion system. Phys. Rev. E. 82:051929.  (eprints)
      • S. Agarwal, C. M. Deane, M. A. Porter and N. S. Jones (2010). Revisiting date and party hubs: novel approaches to role assignment in protein interaction networks. Proc. Comput. Biol. 6:e1000817. (eprints)
      • A. C. F. Lewis, N. S. Jones, M. A. Porter and C. M. Deane (2010). The function of communities in protein interaction networks at multiple scales. BMC. Syst. Biol. 4:100. (eprints)
      • C. A. Yates, R. E. Baker, R. Erban and P. K. Maini  (2010).  Refining self-propelled particle models for collective behaviour. Can. Appl. Math. Q18:299-350. (eprints

       

      2009

       

      • C. A. Yates, R. Erban, C. Escudero, I. D. Couzin, J. Buhl, I. G. Kevrekidis, P. K. Maini, P. K. and D. J. T. Sumpter (2009). Inherent noise can facilitate coherence in collective swarm motion. Proc. Natl. Acad. Sci. USA 106:5464-5469. (eprints)
      • D. V. Nicolau Jr, J. P. Armitage and P. K. Maini (2009). Directional persistence and the optimality of run-and-tumble chemotaxis. Comput. Biol. Chem.33:269-274.(eprints)
      • D. J. Smith, E. A. Gaffney, J. R. Blake and J. C. Kirkman-Brown (2009). Human sperm accumulation near surfaces: a simulation study. J. Fluid Mech. 621:289-320.(eprints)
      • R. Erban and S. J. Chapman (2009). Stochastic modelling of reaction-diffusion processes: algorithms for bimolecular reactions. Phys. Biol. 6:046001. (eprints)
      • H. C. Monro and E. A. Gaffney (2009). Modelling chemotherapy resistance in palliation and failed cure. J. Theor. Biol. 257:292-302. (eprints)
      • R. A. Barrio, R. E. Baker, B. Vaughan, K. Tribuzy, M. R. de Carvalho, R. Bassanezi and P. K. Maini (2009). Modelling the skin pattern of fishes. Phys. Rev. E 79:03198. (eprints)
      • D. J. Smith, E. A. Gaffney, H. Gadelha, N. Kapur and J.C. Kirkman-Brown (2009). Bend propagation in the flagella of migrating human sperm, and its modulation by viscosity. Cell. Motil. Cytoskel. 66:220-336. (eprints)
      • R. Erban, S. J. Chapman, I. Kevrekidis and T. Vejchodsky (2009). Analysis of a stochastic chemical system close to a SNIPER bifurcation of its mean-field model. SIAM J. Appl. Math. 70:984-1016. (eprints)
      • I. M. M. van Leeuwen, G. R. Mirams, A. Walter, A. Fletcher, P. Murray, J. Osborne, S. Varma, S. J. Young, J. Cooper, B. Doyle, J. Pitt-Francis, L. Momtahan, P. Pathmanathan, J. P. Whiteley, S. J. Chapman, D. J. Gavaghan, O. E. Jensen, J. R. King, P. K. Maini, S. L. Waters, H. M. Byrne (2009). An integrative computational model for intestinal tissue renewal. Cell Prolif. 42:617-636. (eprints)
      • M. J. Tindall, S. L. Porter, G. H. Wadhams, P. K. Maini and J. P. Armitage (2009). Spatiotemporal modelling of CheY complexes in Escherichia coli chemotaxis. Prog. Biophys. Mol. Biol. 100:40-46. (eprints)
      • D. Daugherty, T. Roque-Urrea, J. Urrea-Roque, J. Troyer, S. Wirkus and M. A. Porter (2009). Mathematical models of bipolar disorder. Commun. Nonlinear. Sci. 14:2897-2908. (eprints)

       

      2008

       

      • K. Smallbone, R. A. Gatenby and P. K. Maini (2008). Mathematical modelling of tumour acidity. J. Theor. Biol. 255(1):106-112. (eprints)
      • M. V. Plikus, D. De La Cruz, J. Mayer, R. E. Baker, R. Maxon, P. K. Maini and C.-M. Chuong (2008). Cyclic dermal BMP signalling regulates stem cell activation during hair regeneration. Nature. 451:340-344. (eprints)
      • B. Addison-Smith, D. L. S. McElwain and P. K. Maini (2008). A simple mechanistic model of sprout spacing in tumour-associated angiogenesis. J. Theor. Biol. 250:1-15. (eprints)
      • D. J. Smith, E. A. Gaffney and J. R. Blake (2008). Fluid mechanics of nodal flow due to embryonic primary cilia. J. Roy. Soc. Interface. 5:567-573. (eprints)
      • M. J. Tindall, S. L. Porter, P. K. Maini, G. Gaglia and J. P. Armitage (2008). Overview of mathematical approaches used to model bacterial chemotaxis I: the single cell, Bull. Math. Biol. 70:1525-1569. (eprints)
      • M. J. Tindall,  P. K. Maini,  S. L. Porter and J. P. Armitage (2008). Overview of mathematical approaches used to model bacterial chemotaxis II: bacterial populations. Bull. Math. Biol. 70:1570-1607. (eprints)
      • E. A. Gaffney, J. K. Heath and M. Z. Kwiatkowska (2008). A mass action model of a fibroblast growth factor signaling pathway and its simplification. Bull. Math. Biol. 68:99-130. (eprints)
      • R. E. Baker, E. A. Gaffney and P. K. Maini (2008). PDEs for self-organisation in cellular and developmental biology. Nonlinearity 21:R251-R290. (eprints)
      • D. V. Nicolau Jr, K. Burrage, D. V. Nicolau, and P. K. Maini (2008). 'Extremotaxis': Computing with a bacterial-inspired algorithm. Biosystems 94:47-54. (eprints)

       

      2007

       

      • D. J. Smith, E. A. Gaffney and J. R. Blake (2007). A viscoelastic traction layer model of mucociliary flow. Bull. Math. Biol. 69:289-327. (eprints)
      • D. J. Smith, E. A. Gaffney and J. R. Blake (2007). Discrete cilia modelling with singularity distributions. Bull. Math. Biol.  69:1477-1510. (eprints)
      • M. D. Johnston, C. M. Edwards, W. F. Bodmer, P. K. Maini and S. J. Chapman (2007). Mathematical modeling of cell population dynamics in the colonic crypt and in colorectal cancer. Proc. Natl. Acad. Sci. USA 104:4008-4013. (eprints)
      • R. E. Baker and P. K. Maini (2007) A mechanism for morphogen-controlled domain growth. J. Math. Biol. 54:597-622. (eprints)
      • R. Erban and S. J. Chapman (2007). Reactive boundary conditions for stochastic simulations of reaction-diffusion processes. Phys. Biol. 4:16-28. (eprints)
      • H. Yamada, T. Nakagaki, R. E. Baker, and P. K. Maini (2007). Dispersion relation in oscillatory reaction-diffusion systems with self-consistent flow in true slime mold. J. Math. Biol. 54:745-760.  (eprints)
      • R. Erban and S. J. Chapman (2007). Time scale of random sequential adsorption. Phys. Rev. E 75:041116.  (eprints)
      • M. D. Johnston, C. M. Edwards, W. F. Bodmer, P. K. Maini and S. J. Chapman (2007). Examples of mathematical modeling: tales from the crypt. Cell Cycle. 6:2106-2112.  (eprints)
      • K. M. Page, N. A. M. Monk and P. K. Maini (2007). Speed of reaction diffusion in embryogenesis. Phys. Rev. E 76:011902-1  (eprints)
      • M. J. Tindall and C. P. Please (2007). Modelling the cell cycle and cell movement in multicellular spheroids. Bull. Math. Biol. 69:1147-65.
      • A. Madzvamuse and P. K. Maini (2007). Velocity-induced numerical solutions of reaction-diffusion systems on continuously growing domains. J. Comput. Phys. 225:100-119.  (eprints)

       

      2006

      • P. K. Maini, L. Malaguti, C. Marcelli and S. Matucci (2006). Diffusion-aggregation processes with mono-stable reaction terms. Dis. Cont. Dyn. Sys. 6:1175-1189.(eprints)
      • P. K. Maini, R. E. Baker and C. M. Chuong (2006). The Turing model comes of molecular age. Science 314:397-1398. (eprints)
      • R. E. Baker, S. Schnell, and P. K.  Maini (2006). A clock and wavefront mechanism for somite formation. Dev. Biol. 293:116-126. (eprints
      • R. E. Baker, S. Schnell and P. K. Maini (2006). A mathematical investigation of a new model for somitogenesis. J. Math. Biol. 52:458-482. (eprints)
      • I. Barrass, E. J. Crampin, and P. K. Maini (2006). Mode transitions in a model reaction-diffusion system driven by domain growth and noise.  Bull. Math. Biol. 68:981-995. (eprints)
      • M. Meyer-Hermann, P. K. Maini and D. Iber (2006). An analysis of B cell selection mechanisms in germinal centres. Math. Med. Biol. 23: 255-277. (eprints)
      • E. A. Gaffney, and N. A. M. Monk (2006). Gene expression time delays and Turing pattern formation systems. Bull. Math. Biol. 68:99-130. (eprints)
      • R. T. Liu, S. S. Law, and P. K. Maini (2006). Two-stage Turing model for generating pigment patterns on the leopard and the jaguar. Phys. Rev. E.  74:011914 (eprints)