Now showing items 11-30 of 36

  • Engineering simulations for cancer systems biology 

    Bown, James L.; Andrews, Paul S.; Deeni, Yusuf Y.; Goltsov, Alexey; Idowu, Michael A.; Polac, Fiona A.C.; Sampson, Adam T.; Shovman, Mark; Stepney, Susan (Bentham Science Publishers, 2012-11)
    Computer simulation can be used to inform in vivo and in vitro experimentation, enabling rapid, low-cost hypothesis generation and directing experimental design in order to test those hypotheses. In this way, in silico ...
  • Evidence for emergent behaviour in the community-scale dynamics of a fungal microcosm 

    Bown, James L.; Sturrock, Craig J.; Samson, William B.; Staines, Harry J.; Palfreyman, John W.; White, Nia A.; Ritz, Karl; Crawford, J. W. (Royal Society, 1999-10-07)
    A stochastic cellular automaton for modelling the dynamics of a two–species fungal microcosm is presented. The state of each cell in the automaton depends on the state of a predefined neighbourhood via a set of conditional ...
  • Features of the reversible sensitivity-resistance transition in PI3K/PTEN/AKT signalling network after HER2 inhibition 

    Goltsov, Alexey; Faratian, Dana; Langdon, Simon P.; Mullen, Peter; Harrison, David J.; Bown, James L. (Elsevier, 2012-02)
    Systems biology approaches that combine experimental data and theoretical modelling to understand cellular signalling network dynamics offer a useful platform to investigate the mechanisms of resistance to drug interventions ...
  • Feedforward and feedback regulation of the MAPK and PI3K oscillatory circuit in breast cancer 

    Hu, Huizhong; Goltsov, Alexey; Bown, James L.; Sims, Andrew H.; Langdon, Simon P.; Harrison, David J.; Faratian, Dana (Elsevier, 2013-01)
    Although the theoretical possibility of oscillations in MAPK signalling has long been described, experimental validation has proven more elusive. In this study we observed oscillations in MAPK and PI3K signalling in breast ...
  • Information visualization and the arts-science-social science interface 

    Bown, James L.; Fee, Kenneth; Sampson, Adam T.; Shovman, Mark; Falconer, Ruth E.; Goltsov, Alexey; Issacs, John P.; Robertson, Paul; Scott-Brown, Kenneth C.; Szymkowiak, Andrea (ACM, 2010)
    In a world of ever-increasing and newly discovered complexities, and rapidly expanding data sets describing man-made and natural phenomena, information visualization offers a means of structuring and enabling interpretation ...
  • Interspecific fungal interactions in spatially heterogeneous systems 

    White, Nia A.; Sturrock, Craig J.; Ritz, Karl; Samson, William B.; Bown, James L.; Staines, Harry J.; Palfreyman, John W.; Crawford, John (Elsevier, 1998-09)
    The community dynamics of two- and three-fungal species interactions derived for a tessellated agar model system are described. The microcosm allows for the varied prescription of: (1) the number of fungal species interacting; ...
  • Is visual search a high-level phenomenon? Evidence from structure perception in 3-D scatterplots 

    Shovman, Mark; Szymkowiak, Andrea; Bown, James L.; Scott-Brown, Kenneth C. (Pion, 2010)
    Increasing use of 3-D scatterplots for trend detection in visual analytics, raises the theoretical question: what constitutes an object in such a task? Previously (Shovman et al, 2008 Perception 37 79 ^ 80) we have shown ...
  • Linking individual behaviour to community scale patterns in fungi 

    Falconer, Ruth E.; Bown, James L.; White, Nia A.; Crawford, John W. (Elsevier, 2011-02)
    The fungi comprise a separate kingdom of life and epitomise the indeterminate growth form. Very little is known about the factors that influence the nature of fungal diversity and the link between individual behaviour and ...
  • Matrix operations for the simulation and immediate reverse-engineering of time series data 

    Idowu, Michael A.; Bown, James L. (Institute of Electrical and Electronics Engineers (IEEE), 2012)
    We present a new method for constructing and decomposing square matrices. This method, based on the computed parameterisation of their implied determinants and minors, operates on the product of factors of a new form of ...
  • Matrix-based analytical methods for recasting Jacobian models to power-law models 

    Idowu, Michael A.; Bown, James L. (IEEE Computer Society, 2013)
    New methods for inferring data-consistent, selfreconfigurable power-law models from time series data are required and developed. These novel methods may be categorised into two broad groups, namely: straightforward (or ...
  • The meaning of graphs: scatterplots as a test-bed for theories of object-hood 

    Shovman, Mark; Scott-Brown, Kenneth C.; Szymkowiak, Andrea; Bown, James L. (Wolfgang Krammer, 2012)
    The burgeoning field of visual analytics offers a novel area for research in principles of Gestalt, specifically in the definitions of object-hood. Abstract visualisations are parsed into perceptual objects that are rich ...
  • Modelling fungal colonies and communities: challenges and opportunities 

    Falconer, Ruth E.; Bown, James L.; McAdam, Eilidh; Perez-Reche, Paco; Sampson, Adam T.; van den Bulcke, Jan; White, Nia A.; Perez-Reche, Francisco J. (International Mycological Association, 2010-12)
    This contribution, based on a Special Interest Group session held during IMC9, focuses on physiological based models of filamentous fungal colony growth and interactions. Fungi are known to be an important component of ...
  • Modelling interactions in fungi 

    Falconer, Ruth E.; Bown, James L.; White, Nia A.; Crawford, John W. (The Royal Society, 2008-06)
    Indeterminate organisms have received comparatively little attention in theoretical ecology and still there is much to be understood about the origins and consequences of community structure. The fungi comprise an entire ...
  • Modelling of Healthcare Associated Infections: a study on the dynamics of pathogen transmission by using an individual-based approach 

    Milazzoa, L.; Bown, James L.; Eberst, A.; Phillips, G.; Crawford, J. W. (Elsevier, 2011-11)
    Prevention and control of Healthcare Associated Infections (HAIs) has become a high priority for most healthcare organizations. Mathematical models can provide insights into the dynamics of nosocomial infections and help ...
  • A new paradigm for SpeckNets: Inspiration from fungal colonies 

    Falconer, Ruth E.; Bown, James L.; Hart, Emma; Timmis, Jon (Institute of Electrical and Electronics Engineers, 2008-10)
    In this position paper, we propose the development of a new biologically inspired paradigm based on fungal colonies, for the application to pervasive adaptive systems. Fungal colonies have a number of properties that make ...
  • A novel ataxia-telangiectasia mutated autoregulatory feedback mechanism in murine embryonic stem cells 

    Clyde, Robert G.; Craig, Ashley L.; Breed, Lucas de; Bown, James L.; Forrester, Leslie; Vojtesek, Borivoj; Smith, Graeme; Hupp, Ted; Crawford, John W. (The Royal Society, 2009-12)
    Ataxia-telangiectasia mutated (ATM) is known to play a central role in effecting the DNA damage response that protects somatic cells from potentially harmful mutations, and in this role it is a key anti-cancer agent. ...
  • Quantitative analysis of NRF2 pathway reveals key elements of the regulatory circuits underlying antioxidant response and proliferation of ovarian cancer cells 

    Khalil, Hilal S.; Goltsov, Alexey; Langdon, Simon P.; Harrison, David J.; Bown, James L.; Deeni, Yusuf Y. (Elsevier, 2014-11-05)
    Cells are constantly exposed to Reactive Oxygen Species (ROS) produced both endogenously to meet physiological requirements and from exogenous sources. While endogenous ROS are considered as important signalling molecules, ...
  • Reverse engineering of drug induced DNA damage response signalling pathway reveals dual outcomes of ATM kinase inhibition 

    Idowu, Michael A.; Khalil, Hilal S.; Bown, James L.; Zhelev, Nikolai Z. (Dundee Science Press, 2013-12-11)
    The DNA Damage Response (DDR) pathway represents a signalling mechanism that is activated in eukaryotic cells following DNA damage and comprises of proteins involved in DNA damage detection, DNA repair, cell cycle arrest ...
  • The role of modelling in identifying drug targets for diseases of the cell cycle 

    Clyde, Robert G.; Bown, James L.; Hupp, Ted R.; Zhelev, Nikolai Z.; Crawford, John W. (The Royal Society, 2006-10)
    The cell cycle is implicated in diseases that are the leading cause of mortality and morbidity in the developed world. Until recently, the search for drug targets has focused on relatively small parts of the regulatory ...
  • Symbiotic cognitive networks: a proposal 

    Rasheed, Tinku; Hart, Emma; Bown, James L.; Falconer, Ruth E. (Springer, 2010-07)