Eamonn Gaffney. Publications.
Klika, EA Gaffney, History dependence and the continuum approximation
breakdown: the impact of domain growth on Turing's instability, Proc Roy Soc A (2017) 20160744.
LA Hutton-Smith, EA
Gaffney, HM Byrne, PK Maini, K Gadkar, NA Mazer, Ocular
Pharmacokinetics of Therapeutic Antibodies Given by Intravitreal
Injection: Estimation of Retinal Permeabilities Using a 3-Compartment
Semi-Mechanistic Model, Mol. Pharm (2017), 14:2690-2698.
TE Woolley, EA Gaffney, A. Goriely, Random blebbing motion: A simple model linking cell structural properties to migration characteristics Phys Rev E (2017) 96, 012409
M.A. Gilbert, S.M. White, J.M. Bullock, E.A. Gaffney, Speeding Up The Simulation of Population Spread Models, Methods in Ecology and Evolution, (2017) 8:501-510.
K Ishimoto, H Gadelha, EA Gaffney, DJ Smith, JC Kirkman Brown, Coarse-Graining the Fluid Flow around a Human Sperm, Physical Review Letters (2017) 118:124501
Reply to Baveye and Darnault: Useful models are simple and extendable, KZ Coyte, H Tabuteau, EA Gaﬀney, KR Foster, WM Durham, PNAS, (2017) 114:E2804-E2805.
Chen, M. Chen , EA Gaﬀney, CP Brown, Eﬀect of crosslinking in
cartilage-like collagen microstructures, Journal of the Mechanical
Behavior of Biomedical Materials, (2017) 66:138-143.
DL Humphries, JA Grogan, EA Gaffney, Mechanical Cell-Cell Communication in Fibrous Networks: The Importance of Network Geometry, Bulletin of Mathematical Biology (2017) 79:498-524.
competition in porous environments can select against rapid bioﬁlm
growth, KZ Coyte, H Tabuteau, EA Gaffney, KR Foster, WM Durham, PNAS, (2017) 114:E110-E170.
Yi, EA Gaffney, S Seirin Lee, The Bifurcation Analysis of Turing
Pattern Formation Induced by Delay and Diffusion in The Schnakenberg
System, Journal Discrete and Continuous Dynamical System – B, (2017) 247:647-668.
Ishimoto, EA Gaffney, Mechanical tuning of mammalian sperm behaviour by
hyperactivation, rheology and substrate adhesion: a numerical
exploration, J. Royal Society Interface (2016), 13:20160633.
LG Hutchinson, H-J Mueller, EA Gaffney, PK Maini, J Wagg, A Phipps, C Boetsch, HM Byrne, B Ribba, Modeling Longitudinal Preclinical Tumor Size Data to Identify Transient Dynamics in Tumor Response to Antiangiogenic Drugs, CPT Pharmacometrics Syst. Pharmacol (2016), doi:10.1002/psp4.12142
LA Hutton-Smith, EA Gaffney, HM Byrne, PK Maini, D Schwab, NA Mazer, A mechanistic model of the intravitreal pharmacokinetics of large molecules and the pharmacodynamic suppression of ocular vascular endothelial growth factor levels by ranibizumab in patients with neovascular age-related macular degeneration, Molecular pharmaceutics (2016) 13:2941-50.
LG Hutchinson, EA
Gaffney, PK Maini, J Wagg, A Phipps, HM Byrne, Vascular phenotype
identification and anti-angiogenic treatment recommendation: A
pseudo-multiscale mathematical model of angiogenesis, Journal of
Theoretical Biology (2016) 398:162-180.
PA Roberts, EA Gaffney, PJ Luthert, AJE Foss, HM Byrne, Retinal Oxygen Distribution and the Role of Neuroglobin, Journal of Mathematical Biology, (2016) 73:1-38.
V Klika, EA Gaffney*, YC Chen, CP Brown, An overview of multiphase cartilage mechanical modelling and its role in understanding function and pathology, Journal of The Mechanical Behavior Of Biomedical Materials (2016) 62: 139-157 [*Equal first authors].
PA Roberts, EA Gaffney, PJ Luthert, AJE Foss, HM Byrne, Mathematical And Computational Models Of The Retina In Health, Development And Disease, Progress in Retinal And Eye Research (2016) 53:48-69.
K Ishimoto, J Cosson, EA Gaffney, A Simulation Study of Sperm Motility Hydrodynamics Near Fish Eggs and Spheres, Journal of Theoretical Biology, 389: 187-197 (2016).
FAN Santos, H Gadelha, EA Gaffney, Fock space, symbolic algebra and analytical solutions for small stochastic systems, Physical Review E, (2015) 062714.
H Shum, EA Gaffney, Hydrodynamic analysis of flagellated bacteria swimming in corners of rectangular channels Physical Review E 92: 063016 (2015).
Woolley, EA Gaffney, A. Goriely, Membrane shrinkage and cortex
remodelling are predicted to work in harmony to retract blebs, Royal Society Open Science, (2015).DOI: 10.1098/rsos.150184, 15 pages.
B, Thiyagalingam J, Walton S, Smith DJ, Trefethen A, Kirkman-Brown JC,
Gaffney EA, Chen M. Glyph-Based Video Visualization for Semen Analysis.
IEEE Trans Vis Comput Graph. (2015) 21: 980-993
D Hauton, J Winter, AA Al-Shammari, EA Gaffney, RD Evans, S Egginton, Maternal hypoxia decreases capillary supply and increases metabolic inefficiency leading to divergence in myocardial oxygen supply and demand, PLOS One (2015), DOI: 10.1371/journal.pone.0127424
H Shum, EA Gaffney, Hydrodynamic analysis of flagellated bacteria swimming near one and between two no-slip plane boundaries, Physical Review E (2015) 91:033012
K. Ishimoto, EA Gaffney, Fluid flow and sperm guidance: a simulation study of hydrodynamic sperm rheotaxis, Journal of the Royal Society Interface(2015), 12:20150172.
D Hauton, J Winter, AA Al-Shammari, EA Gaffney, RD Evans, S Egginton, Changes to both cardiac metabolism and performance accompany acute reductions in functional capillary supply, Biochimica et Biophysica Acta (BBA)-General Subjects, (2015) 1850:681-690.
K Korvasová, EA Gaffney, PK Maini, MA Ferreira, V Klika, Investigating the Turing conditions for diffusion-driven instability in the presence of a binding immobile substrate, Journal of Theoretical Biology, (2015) 367:286-195.
EA Gaffney, S Seirin Lee*, The Sensitivity of Turing Self-Organisation
to Biological Feedback Delays: 2D Models of Fish Pigmentation,
Mathematical Medicine and Biology, (2015) 32:56-78. [*Equal First Authors]
MA Gilbert, EA Gaffney, JM Bullock, SM White, Spreading speeds for plant populations in landscapes with low environmental variations, Journal of Theoretical Biology (2014), 363:436-452
EH Ooi, DJ Smith, H Gadêlha, EA Gaffney, J. Kirkman-Brown The mechanics of hyperactivation in adhered human sperm, Royal Society Open Science 2014, doi 10.1098/rsos.140230
JB McGillen, CJ Kelly, A Martinez-Gonzalez, NK Martin, EA Gaffney, PK Maini, Victor M Perez-Garcia, Glucose–lactate metabolic cooperation in cancer: Insights from a spatial mathematical model and implications for targeted therapy, Journal of Theoretical Biology (2014) 361:190-203
K Ishimoto, EA Gaffney, A study of spermatozoan swimming stability near a surface. Journal of Theoretical Biology (2014) 360 187-199.
TE Woolley, PK Maini and EA Gaffney, Is pigment cell pattern formation in zebrafish a game of cops and robbers? Pigment Cell & Melanoma Research (2014) 27:686-687.
K Ishimoto, EA Gaffney, Swimming efficiency of spherical squirmers: Beyond the Lighthill theory. Phys Rev E (2014), 90 012704
TE Woolley, EA Gaffney, SL Waters, JM Oliver, RE Baker, A Goriely,
Three mechanical models for blebbing and
Journal of Applied Mathematics (2014) 79:636-660.
Al-Shammari, EA Gaffney, S Egginton, Modelling capillary oxygen supply
capacity in mixed muscles: Capillary domains revisited, Journal of
Theoretical Biology, (2014) 356:47-61
DC Markham, MJ Simpson, PK Maini, EA Gaffney, RE Baker, Comparing methods for modelling spreading cell fronts Journal of Theoretical Biology (2014) 353:95-103.
S Manzano, EA Gaffney, M Doblare, AH Doweidar, Cartilage Dysfunction in ALS Patients as Side Effect of Motion Loss: 3D Mechano-Electrochemical Computational Model, Biomed Research International 179070 (2014)
JB McGillen, EA Gaffney, NK Martin, PK Maini, A general reaction-diffusion model of acidity in cancer invasion, J. Math. Biol. (2014), 68:1199-1224
MA Gilbert, SM White, JM Bullock, EA Gaffney, Spreading speeds for stage structured plant populations in fragmented landscapes, Journal of Theoretical Biology (2014), 349:135-49.
Woolley, EA Gaffney, JM Oliver, RE Baker, SL Waters, A Goriely,
Cellular blebs: pressure-driven, axisymmetric, membrane protrusions, Biomechanics and Modeling in Mechanobiology (2014), 13:463-476
K Ishimoto, EA Gaffney, Squirmer dynamics near a boundary. Phys Rev E 88, 062702 (2013).
Markham, MJ Simpson, PK Maini, EA Gaffney, RE Baker, Incorporating
spatial correlations into multispecies mean-field models, Phys. Rev
E88, 052713 (2013).
H. Gadêlha, E. A. Gaffney, and A. Goriely, The counterbend phenomenon in flagellar axonemes and cross-linked filament bundles, PNAS 2013 110 (30) 12180-12185.
S. Seirin Lee, RE Baker, EA Gaffney, SM White, Modelling Aedes aegypti mosquito control via transgenic and sterile insect techniques: Endemics and emerging outbreaks, J. Theor. Biol. (2013), 331 p78-90.
VS Zubkov, CJW Breward, EA Gaffney, Meniscal Fluid Dynamics near Marx's Line, Bull. Math. Bio., (2013) 75, p1524-1543.
Belmonte-Beitia, TE Woolley, JG Scott, PK
Maini, EA Gaffney, Modelling biological invasions: Individual to
population scales at interfaces, J. Theoretical
Biology, (2013), 334 p1-12.
MP Curtis, EA Gaffney, The Three Sphere Swimmer in a Nonlinear Viscoelastic Medium, Phys Rev E 87, 043006 (2013)
S. Seirin Lee, RE Baker, EA Gaffney, SM White, Optimal barrier zones for stopping the invasion of Aedes aegypti mosquitoes via transgenic or sterile insect techniques, Theor. Ecol. (2013), 6, p427-442.
MP Curtis, JC Kirkman-Brown, TJ Connolly, EA Gaffney, Modelling a tethered mammalian sperm cell undergoing hyperactivation, Journal of Theoretical Biology (2012) 309, p1-10
EA Gaffney, NAM Monk, RE Baker, S Seirin Lee, Reply to Correspondence: No Oscillations in Real Activator-Inhibitor Systems in Accomplishing Pattern Formation. Bull Math Biol. (2012) 74:2268-2271.
H Shum, EA Gaffney, The effects of flagellar hook compliance on motility of monotrichous bacteria: a modeling study, Physics of Fluids (2012) Volume: 24 Issue: 6 Pages: 061901 (19 pp.)
VS Zubkov, CJW Breward, EA Gaffney, Coupling fluid and solute dynamics within the ocular surface tear film: a modelling study of black line osmolarity, Bull. Math. Bio (2012) 74, p2062-93
NK Martin, IF Robey, EA Gaffney, RJ Gillies, RA Gatenby, PK Maini, Predicting the Safety and Efficacy of Buffer Therapy to Raise Tumour pHe: An Integrative Modelling Study, British J. of Cancer (2012), 7, 1280-1287.
AA Al-Shammari, EA Gaffney, S Egginton, Re-evaluating the Use of Voronoi Tessellations in the Assessment of Oxygen Supply from Capillaries in Muscle. Bull. Math. Bio (2012) 74, p2204-31
MJ Tindall, EA Gaffney, PK Maini, JP Armitage, Theoretical insights into bacterial chemotaxis WIREs Syst Biol Med (2012) 4, p247-259.
H Colin-Harper, TE Woolley, L Dyson, A Patel, P Potter, RE Baker, EA Gaffney, PK Maini, PR Dash, K Patel, Age Related changes in speed and mechanism of adult stem cell migration, Stem Cells (2012), 30, p1182-1195.
PK Maini, TE Woolley, RE Baker, EA Gaffney and S Seirin Lee, Turing’s model for biological pattern formation and the robustness problem, Interface Focus (2012), 2, p487-496
J. McGillen, NK Martin, IF Robey, EA Gaffney, PK Maini, Applications of mathematical analysis to tumour acidity modelling, U. Kyoto RIMS Kokyuroku Bessatsu, May 2012, 31-60.
PDMH Verhaegen, J van Marle, A Kuehne, HJ Schouten, EA Gaffney, PK Maini, E Middelkoop, PPM van Zuijlen, Collagen bundle morphometry in skin and scar tissue: a novel distance mapping method provides superior measurements compared to Fourier analysis, Journal of Microscopy, (2012) 245 p82-89.
TE Woolley, RE Baker, EA Gaffney, PK Maini, S Seirin-Lee, Effects of intrinsic stochasticity on delayed reaction-diffusion patterning systems, Phys. Rev. E (2012) 85 051914
V Klika, RE Baker, D Headon, EA Gaffney, The influence of receptor-mediated interactions on reaction-diffusion mechanisms of cellular self-organisation, Bulletin of Mathematical Biology (2012) p 935-957.
TE Woolley, RE Baker, EA Gaffney, PK Maini, Stochastic reaction and diffusion on growing domains: Understanding the breakdown of robust pattern formation, Phys. Rev. E 84, (2011) 046216 [16 pages]
TE Woolley, RE Baker, EA Gaffney, PK Maini, Influence of stochastic domain growth on pattern nucleation for diffusive systems with internal noise, Phys. Rev. E 84, 041905 (2011) [13 pages]
EAJ Boston, EA Gaffney, The influence of toxicity constraints in models of chemotherapeutic protocol escalation Math Med Biol (2011) 28 p357-384.
C. Venkataraman, T. Sekimura EA Gaffney, PK Maini, A.Madzvamuse, Modeling parr-mark pattern formation during the early development of Amago trout Phys. Rev. E 84, 041923 (2011) [13 pages]
S Seirin Lee, EA Gaffney, RE Baker, The dynamics of Turing patterns for morphogen-regulated growing domains with cellular response delays, Bulletin of Mathematical Biology, (2011), 73 p2527-2551
TE Woolley, RE Baker, EA Gaffney, PK. Maini, Power spectra methods for a stochastic description of diffusion on deterministically growing domains Phys. Rev. E (2011) 84, 021915 [15 pages]
DJ Smith, EA Gaffney, H Shum, H Gadelha, JC Kirkman-Brown, Comment on the Article by J. Elgeti, U. B. Kaupp, and G. Gompper: Hydrodynamics of Sperm Cells Near Surfaces, Biophysical J. (2011) 100 9 p2318-2320
AJ Bron, N Yokoi, EA Gaffney, JM Tiffany, A solute gradient in the tear meniscus. I. A hypothesis to explain Marx's line. The Ocular Surface (2011) 9 p70-91.
AJ Bron, N Yokoi, EA Gaffney, JM Tiffany, A solute gradient in the tear meniscus. II Implications for lid margin disease, including meibomian gland dysfunction. The Ocular Surface (2011) 9 p92-97.
J Schofield, EA Gaffney, RA Gatenby, PK Maini, Tumour angiogenesis: The gap between theory and experiments, J. Theoretical Biology, (2011) 274, p97-102.
NK Martin, EA Gaffney, RA Gatenby, RJ Gillies, IF Robey, PK. Maini, A Mathematical Model of Tumour and Blood pHe Regulation: The HCO3 /CO2 Buffering System, Math Biosci (2011) 230 p1-11.
EA Gaffney, H Gadelha, DJ Smith, JR Blake, JC Kirkman-Brown, Mammalian Sperm Motility: Observation and Theory. Annual Reviews of Fluid Mechanics, (2011), 43, p501-528.
NK Martin, EA Gaffney, RA Gatenby, PK Maini, Tumour-Stromal Interactions in Acid-Mediated Invasion: A Mathematical Model, Journal Of Theoretical Biology, (2010), 267, p461-470.
NK Martin, EA Gaffney, RA Gatenby, PK Maini, Leaky Vessels As A Potential Source Of Stromal Acidification In Tumours, Journal Of Theoretical Biology (2010), 267 p454-460.
S Egginton, EA Gaffney, Tissue capillary supply - it's quality not quantity that counts!, Experimental Physiology (2010), 95, p971-979.
S Seirin Lee, EA Gaffney, Aberrant Behaviours of Reaction Diffusion Self-organisation Models on Growing Domains in the Presence of Gene Expression Time Delays, Bulletin of Mathematical Biology (2010), 72, p2161-2179.
H Gadelha, EA Gaffney, DJ Smith, JC Kirkman-Brown, Nonlinear instability in flagellar dynamics: a novel modulation mechanism in sperm migration?, J. Royal Society Interface (2010) 7 p1689-1697.
S Seirin Lee, EA Gaffney, NAM Monk, The Influence of Gene Expression Time Delays on Gierer-Meinhardt Pattern Formation Systems, Bulletin of Mathematical Biology (2010), 72, p2139-2160.
H Shum, EA Gaffney, DJ Smith, Modelling bacterial behaviour close to a no-slip plane boundary: the influence of bacterial geometry, Proc Roy Soc A (2010) 466 p1725-1748.
P Moreo, EA Gaffney, JM Garcia-Anzar, M Doblare, On the modelling of biological patterns with mechanochemical models: insights from analysis and computation, Bulletin of Mathematical Biology (2010), 72, p400-431.
A Madzvamuse, EA Gaffney, PK Maini, Stability analysis of reaction-diffusion systems with time-dependent coefficients on growing domains, Journal Of Mathematical Biology (2010), 61, p133-164
EA Gaffney, JM Tiffany, N Yokoi, AJ Bron, A Mass and Solute Balance Model for Tear Volume and Osmolarity in The Normal And The Dry Eye, Progress in Retinal And Eye Research (2010), 29, p59-78.
DJ Smith, EA Gaffney, JR Blake, Mathematical modelling of cilia-driven transport of biological fluids, Proceedings of the Royal Society A (2009), 465, p2417-2439.
AJ Bron, N Yokoi, EA Gaffney, JM Tiffany, Predicted Phenotypes of Dry Eye - Proposed Consequences of its Natural History, The Ocular Surface (2009) 7, p78-92.
DJ Smith, EA Gaffney, H Gadelha, N Kapur, JC Kirkman-Brown, Bend propagation in the flagella of migrating human sperm, and its modulation by viscosity, Cell Motility & The Cytoskeleton (2009), 66, 220-236.
DJ Smith, EA Gaffney, JR Blake, JC Kirkman-Brown, Human sperm accumulation near surfaces: a simulation study, J. Fluid Mechanics (2009), 621, p289-320.
HC Monro, EA Gaffney, Modelling chemotherapy resistance in palliation and failed cure, J. Theoretical Biology (2009), 257, p292-302.
DJ Smith, EA Gaffney, JR Blake, Modelling mucociliary clearance, Respiratory Physiology & Neurobiology (2008) 163, p178-188.
RE Baker, EA Gaffney, PK Maini, Partial differential equations for self-organization in cellular and developmental biology, Nonlinearity (2008), 21, R251-290.
DJ Smith, JR Blake, EA Gaffney, Fluid mechanics of nodal flow due to embryonic primary cilia, Journal of The Royal Society Interface (2008) 5, p567-573
EA Gaffney, JK Heath, MZ Kwiatkowska, A Mass Action Model of a Fibroblast Growth Factor Signaling Pathway and Its Simplification, Bulletin of Mathematical Biology (2008) 68, p99-130.
DJ Smith, EA Gaffney, JR Blake, Discrete cilia modelling with singularity distributions, Bulletin of Mathematical Biology (2007) 69, p1477-1510.
DJ Smith, EA Gaffney, JR. Blake, A model of tracer transport in airway surface liquid, Bulletin of Mathematical Biology (2007) 69, p817-836.
DJ Smith, EA Gaffney and JR Blake, A visco-elastic traction layer model of muco-ciliary transport, Bulletin Mathematical Biology, (2007) 69, p289-327.
EA Gaffney, NAM Monk, Gene Expression Time Delays and Turing Pattern Formation Systems, Bulletin Mathematical Biology (2006), p99-130.
EA Gaffney, The Mathematical Modelling of Adjuvant Chemotherapy Scheduling: Incorporating the Effects of Protocol Rest Phases and Pharmacokinetics. Bulletin of Mathematical Biology (2005) 67, p563-611.
EA Gaffney, The Application Of Mathematical Modelling To Aspects Of Adjuvant Chemotherapy Scheduling, Journal of Mathematical Biology (2004) 48, p375-422.
EA Gaffney, K. Pugh, PK Maini, F. Arnold, Investigating A Simple Model Of Wound Healing Angiogenesis, J. of Mathematical Biology (2002) 45 p337-374.
E. Crampin, EA Gaffney, P.K. Maini, Mode Doubling And Tripling In Reation-Diffusion Patterns On Growing Domains: A Piecewise Linear Model, J. of Mathematical Biology (2002) 44 p107-128.
EA. Gaffney, On Conditions For The Stability Of A Two Component Mixed Quasimonotone Reaction Diffusion Equation, J. of Mathematical Analysis and Applications (2001) 256, p513-524.
EA Gaffney, PK Maini, JA Sherratt, S.Tuft, The Mathematical Modelling Of Cell Kinetics In Corneal Epithelial Wound Healing And Comparison With Experiment, Journal of Theoretical Biology (1999) 197, p15-40.
EA Gaffney, PK Maini, C. McCaig, M. Zhao, J. Forrester, Modelling corneal epithelial wound closure in the presence of physiological electric fields via a moving boundary formalism, IMA Journal of Mathematics Applied in Medicine and Biology (1999) 16, p369-393.
E. Crampin, EA Gaffney, PK Maini, Reaction and Diffusion on Growing Domains: Scenarios for Robust Pattern Formation, Bulletin Mathematical Biology (1999) 61, p1093-1120.
Gaffney, PK Maini, JA Sherratt, PD Dale, Wound healing in the corneal
epithelium: biological mechanisms and mathematical models,
Computational and Mathematical Methods in Medicine (1997),
EA Gaffney, Massive hard thermal loops in curved space-time, Nuclear Physics B (1996) 476: 275-309.
EA Gaffney, Quark hard thermal loops in curved spacetime, Nuclear Physics B (1996) 459:311-334.
J Frenkel, EA Gaffney, JC Taylor, High-temperature field theory in curved spacetime, Nuclear Physics B (1995) 439: 131-143.
K Ishimoto, EA Gaffney, Modelling Spermatozoan Swimming: Its Capabilities and Limitations for Contributing to The Understanding of Sperm Guidance, Flagellar mechanics and sperm guidance, Ch.9, Flagellar mechanics and sperm guidance, Ed. J. Cosson, Bentham Science Publishers, (2015).
PK Maini, TE.Woolley, EA Gaffney, RE Baker, Turing’s Theory of Developmental Pattern Formation, The Once and Future Turing, Ch 9, p137-149, edited by S.B. Cooper & A. Hodges, Cambridge University Press 2015
AA Al-Shammari, EA Gaffney, S Egginton, Modelling Oxygen Capillary Supply to Striated Muscle Tissues, Springer Proceedings in Mathematics & Statistics 87, Advances in Applied Mathematics, In Press
Shum H, Gaffney EA. Ch.2 in: MJ Kim, E Steager, A Agung Julius eds. Mathematical models for individual swimming bacteria in Microbiorobotics: biologically inspired microscale robotic systems. Elsevier, 2012. ISBN: 9781455778911
M Kwiatkowska, G Norman, D Parker, O Tymchyshyn, JK Heath, EA Gaffney, Simulation And Verification For Computational Modelling Of Signalling Pathways, Proceedings of the 2006 Winter Simulation Conference, L. F. Perrone, F. P. Wieland, J. Liu, B. G. Lawson, D. M. Nicol, and R. M. Fujimoto, eds, (2006)
JR Blake, EA Gaffney, Modelling aspects of tracer transport in muco-ciliary flows, In Cilia, Mucus and Mucociliary Interactions, 26, M Salathe (Editor), New York, Marcel Dekker, 291-302. (2001).