2024
Deterministic epidemic models overestimate the basic reproduction number of observed outbreaks (Journal article)
Ali, W., Overton, C. E., Wilkinson, R. R., & Sharkey, K. J. (2024). Deterministic epidemic models overestimate the basic reproduction number of observed outbreaks. Infectious Disease Modelling. doi:10.1016/j.idm.2024.02.007DOI: 10.1016/j.idm.2024.02.007
2023
Pattni, K., Ali, W., Broom, M., & Sharkey, K. J. (2023). Eco-evolutionary dynamics in finite network-structured populations with migration.. Journal of theoretical biology, 111587. doi:10.1016/j.jtbi.2023.111587DOI: 10.1016/j.jtbi.2023.111587
2022
Stickels, C. P., Nadarajah, R., Gale, C. P., Jiang, H., Sharkey, K. J., Gibbison, B., . . . Erhun, F. (2022). Aortic stenosis post-COVID-19: a mathematical model on waiting lists and mortality. BMJ OPEN, 12(6). doi:10.1136/bmjopen-2021-059309DOI: 10.1136/bmjopen-2021-059309
Pattni, K., Hungerford, D., Adams, S., Buchan, I., Cheyne, C. P., García-Fiñana, M., . . . Sharkey, K. J. (n.d.). Effectiveness of the BNT162b2 (Pfizer-BioNTech) and the ChAdOx1 nCoV-19 (Oxford-AstraZeneca) vaccines for reducing susceptibility to infection with the Delta variant (B.1.617.2) of SARS-CoV-2. BMC Infectious Diseases, 22(1). doi:10.1186/s12879-022-07239-zDOI: 10.1186/s12879-022-07239-z
2021
Overton, C. E., Wilkinson, R. R., Loyinmi, A., Miller, J. C., & Sharkey, K. J. (2022). Approximating Quasi-Stationary Behaviour in Network-Based SIS Dynamics. BULLETIN OF MATHEMATICAL BIOLOGY, 84(1). doi:10.1007/s11538-021-00964-7DOI: 10.1007/s11538-021-00964-7
Wardeh, M., Blagrove, M. S. C., Sharkey, K. J., & Baylis, M. (2021). Divide-and-conquer: machine-learning integrates mammalian and viral traits with network features to predict virus-mammal associations. Nature Communications, 12(1). doi:10.1038/s41467-021-24085-wDOI: 10.1038/s41467-021-24085-w
Pattni, K., Overton, C. E., & Sharkey, K. J. (2021). Evolutionary graph theory derived from eco-evolutionary dynamics. JOURNAL OF THEORETICAL BIOLOGY, 519. doi:10.1016/j.jtbi.2021.110648DOI: 10.1016/j.jtbi.2021.110648
Metelmann, S., Pattni, K., Brierley, L., Cavalerie, L., Caminade, C., Blagrove, M. S. C., . . . Baylis, M. (2021). Impact of climatic, demographic and disease control factors on the transmission dynamics of COVID-19 in large cities worldwide.. One Health, 100221. doi:10.1016/j.onehlt.2021.100221DOI: 10.1016/j.onehlt.2021.100221
Overton, C. E., & Sharkey, K. J. (2021). Evolutionary bet-hedging in structured populations. JOURNAL OF MATHEMATICAL BIOLOGY, 82(5). doi:10.1007/s00285-021-01597-zDOI: 10.1007/s00285-021-01597-z
2020
Metelmann, S., Pattni, K., Brierley, L., Cavalerie, L., Caminade, C., Blagrove, M., . . . Baylis, M. (2020). Impact of climatic, demographic and disease control factors on the transmission dynamics of COVID-19 in large cities worldwide. doi:10.1101/2020.07.17.20155226DOI: 10.1101/2020.07.17.20155226
Wardeh, M., Sharkey, K. J., & Baylis, M. (2020). Integration of shared-pathogen networks and machine learning reveals the key aspects of zoonoses and predicts mammalian reservoirs.. Proceedings. Biological sciences, 287(1920). doi:10.1098/rspb.2019.2882DOI: 10.1098/rspb.2019.2882
2019
Jones, A. E., Munro, L. A., Greed, D. M., Morgan, K. L., Murray, A. G., Norman, R., . . . Sharkey, K. J. (2019). The contact structure of Great Britain's salmon and trout aquaculture industry. EPIDEMICS, 28. doi:10.1016/j.epidem.2019.05.001DOI: 10.1016/j.epidem.2019.05.001
Overton, C. E., Broom, M., Hadjichrysanthou, C., & Sharkey, K. J. (2019). Methods for approximating stochastic evolutionary dynamics on graphs. JOURNAL OF THEORETICAL BIOLOGY, 468, 45-59. doi:10.1016/j.jtbi.2019.02.009DOI: 10.1016/j.jtbi.2019.02.009
Sharkey, K. J. (2019). Localization of eigenvector centrality in networks with a cut vertex. Physical Review E, 99(1). doi:10.1103/PhysRevE.99.012315DOI: 10.1103/PhysRevE.99.012315
2018
A Combined In Vitro/In Silico Approach to Identifying Off-Target Receptor Toxicity (Journal article)
Leedale, J., Sharkey, K., Colley, H., Norton, A., Peeney, D., Mason, C., . . . Webb, S. (2018). A Combined In Vitro/In Silico Approach to Identifying Off-Target Receptor Toxicity. iScience, 4, 84-96. doi:10.1016/j.isci.2018.05.012DOI: 10.1016/j.isci.2018.05.012
Impact of the infectious period on epidemics (Journal article)
Wilkinson, R., & sharkey, K. J. (2018). Impact of the infectious period on epidemics. Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), 97(5). doi:10.1103/PhysRevE.97.052403DOI: 10.1103/PhysRevE.97.052403
2017
Sharkey, K. J. (2017). A control analysis perspective on Katz centrality. SCIENTIFIC REPORTS, 7. doi:10.1038/s41598-017-15426-1DOI: 10.1038/s41598-017-15426-1
2016
The deterministic Kermack‒McKendrick model bounds the general stochastic epidemic (Journal article)
Wilkinson, R. R., Ball, F. G., & Sharkey, K. J. (2016). The deterministic Kermack‒McKendrick model bounds the general stochastic epidemic. Journal of Applied Probability, 53(4), 1031-1040. doi:10.1017/jpr.2016.62DOI: 10.1017/jpr.2016.62
Jonkers, A. R. T., & Sharkey, K. J. (2016). The Differential Warming Response of Britain's Rivers (1982-2011). PLOS ONE, 11(11). doi:10.1371/journal.pone.0166247DOI: 10.1371/journal.pone.0166247
Frasca, M., & Sharkey, K. J. (2016). Discrete-time moment closure models for epidemic spreading in populations of interacting individuals. JOURNAL OF THEORETICAL BIOLOGY, 399, 13-21. doi:10.1016/j.jtbi.2016.03.024DOI: 10.1016/j.jtbi.2016.03.024
The relationships between message passing, pairwise, Kermack-McKendrick and stochastic SIR epidemic models (Journal article)
Wilkinson, R. R., Ball, F. G., & Sharkey, K. J. (2017). The relationships between message passing, pairwise, Kermack-McKendrick and stochastic SIR epidemic models. Journal of Mathematical Biology, 75(6-7), 1563-1590. doi:10.1007/s00285-017-1123-8DOI: 10.1007/s00285-017-1123-8
2015
Message passing and moment closure for susceptible-infected-recovered epidemics on finite networks (vol 89, 022808, 2014) (Journal article)
Ball, F. G., Wilkinson, R. R., & Sharkey, K. J. (2015). Message passing and moment closure for susceptible-infected-recovered epidemics on finite networks (vol 89, 022808, 2014). PHYSICAL REVIEW E, 92(3). doi:10.1103/PhysRevE.92.039904DOI: 10.1103/PhysRevE.92.039904
Complete hierarchies of SIR models on arbitrary networks with exact and approximate moment closure (Journal article)
Sharkey, K. J., & Wilkinson, R. R. (2015). Complete hierarchies of SIR models on arbitrary networks with exact and approximate moment closure. MATHEMATICAL BIOSCIENCES, 264, 74-85. doi:10.1016/j.mbs.2015.03.008DOI: 10.1016/j.mbs.2015.03.008
Epidemic control analysis: Designing targeted intervention strategies against epidemics propagated on contact networks (Journal article)
Hadjichrysanthou, C., & Sharkey, K. J. (2015). Epidemic control analysis: Designing targeted intervention strategies against epidemics propagated on contact networks. JOURNAL OF THEORETICAL BIOLOGY, 365, 84-95. doi:10.1016/j.jtbi.2014.10.006DOI: 10.1016/j.jtbi.2014.10.006
2014
Tight Control of Hypoxia-inducible Factor-α Transient Dynamics Is Essential for Cell Survival in Hypoxia (Journal article)
Bagnall, J., Leedale, J., Taylor, S. E., Spiller, D. G., White, M. R. H., Sharkey, K. J., . . . See, V. (2014). Tight Control of Hypoxia-inducible Factor-α Transient Dynamics Is Essential for Cell Survival in Hypoxia. JOURNAL OF BIOLOGICAL CHEMISTRY, 289(9), 5549-5564. doi:10.1074/jbc.M113.500405DOI: 10.1074/jbc.M113.500405
2013
A novel untargeted metabolomics correlation-based network analysis incorporating human metabolic reconstructions (Journal article)
Kotze, H. L., Armitage, E. G., Sharkey, K. J., Allwood, J. W., Dunn, W. B., Williams, K. J., & Goodacre, R. (2013). A novel untargeted metabolomics correlation-based network analysis incorporating human metabolic reconstructions. BMC SYSTEMS BIOLOGY, 7. doi:10.1186/1752-0509-7-107DOI: 10.1186/1752-0509-7-107
Message passing and moment closure for susceptible-infected-recovered epidemics on finite networks (Journal article)
Wilkinson, R., & Sharkey, K. (2014). Message passing and moment closure for susceptible-infected-recovered epidemics on finite networks. Physical Review E, 89(2). doi:10.1103/PhysRevE.89.022808DOI: 10.1103/PhysRevE.89.022808
An Exact Relationship Between Invasion Probability and Endemic Prevalence for Markovian SIS Dynamics on Networks (Journal article)
Wilkinson, R. R., & Sharkey, K. J. (2013). An Exact Relationship Between Invasion Probability and Endemic Prevalence for Markovian SIS Dynamics on Networks. PLOS ONE, 8(7). doi:10.1371/journal.pone.0069028DOI: 10.1371/journal.pone.0069028
2012
Exact Equations for SIR Epidemics on Tree Graphs (Journal article)
Sharkey, K. J., Kiss, I. Z., Wilkinson, R. R., & Simon, P. L. (2015). Exact Equations for SIR Epidemics on Tree Graphs. BULLETIN OF MATHEMATICAL BIOLOGY, 77(4), 614-645. doi:10.1007/s11538-013-9923-5DOI: 10.1007/s11538-013-9923-5
2011
Deterministic epidemic models on contact networks: Correlations and unbiological terms (Journal article)
Sharkey, K. J. (2011). Deterministic epidemic models on contact networks: Correlations and unbiological terms. THEORETICAL POPULATION BIOLOGY, 79(4), 115-129. doi:10.1016/j.tpb.2011.01.004DOI: 10.1016/j.tpb.2011.01.004
2010
Epidemics and control strategies for diseases of farmed salmonids: A parameter study (Journal article)
Jonkers, A. R. T., Sharkey, K. J., Thrush, M. A., Turnbull, J. F., & Morgan, K. L. (2010). Epidemics and control strategies for diseases of farmed salmonids: A parameter study. EPIDEMICS, 2(4), 195-206. doi:10.1016/j.epidem.2010.08.001DOI: 10.1016/j.epidem.2010.08.001
Jonkers, A. R. T., Sharkey, K. J., Thrush, M. A., Turnbull, J. F., & Morgan, K. L. (2010). Epidemics and control strategies for diseases of farmed salmonids: A parameter study. Epidemics, 2(4), 195-206. doi:10.1016/j.epidem.2010.08.001DOI: 10.1016/j.epidem.2010.08.001
Preventable H5N1 avian influenza epidemics in the British poultry industry network exhibit characteristic scales (Journal article)
Jonkers, A. R. T., Sharkey, K. J., & Christley, R. M. (2010). Preventable H5N1 avian influenza epidemics in the British poultry industry network exhibit characteristic scales. JOURNAL OF THE ROYAL SOCIETY INTERFACE, 7(45), 695-701. doi:10.1098/rsif.2009.0304DOI: 10.1098/rsif.2009.0304
2009
SulfoSYS (<i>Sulfolobus</i> Systems Biology): towards a silicon cell model for the central carbohydrate metabolism of the archaeon <i>Sulfolobus solfataricus</i> under temperature variation (Journal article)
Albers, S. -V., Birkeland, N. -K., Driessen, A. J. M., Gertig, S., Haferkamp, P., Klenk, H. -P., . . . Zaparty, M. (2009). SulfoSYS (<i>Sulfolobus</i> Systems Biology): towards a silicon cell model for the central carbohydrate metabolism of the archaeon <i>Sulfolobus solfataricus</i> under temperature variation. BIOCHEMICAL SOCIETY TRANSACTIONS, 37, 58-64. doi:10.1042/BST0370058DOI: 10.1042/BST0370058
2008
Deterministic epidemiological models at the individual level (Journal article)
Sharkey, K. J. (2008). Deterministic epidemiological models at the individual level. JOURNAL OF MATHEMATICAL BIOLOGY, 57(3), 311-331. doi:10.1007/s00285-008-0161-7DOI: 10.1007/s00285-008-0161-7
Epidemiological consequences of an incursion of highly pathogenic H5N1 avian influenza into the British poultry flock (Journal article)
Sharkey, K. J., Bowers, R. G., Morgan, K. L., Robinson, S. E., & Christley, R. M. (2008). Epidemiological consequences of an incursion of highly pathogenic H5N1 avian influenza into the British poultry flock. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 275(1630), 19-28. doi:10.1098/rspb.2007.1100DOI: 10.1098/rspb.2007.1100
2006
Pair-level approximations to the spatio-temporal dynamics of epidemics on asymmetric contact networks (Journal article)
Sharkey, K. J., Fernandez, C., Morgan, K. L., Peeler, E., Thrush, M., Turnbull, J. F., & Bowers, R. G. (2006). Pair-level approximations to the spatio-temporal dynamics of epidemics on asymmetric contact networks. JOURNAL OF MATHEMATICAL BIOLOGY, 53(1), 61-85. doi:10.1007/s00285-006-0377-3DOI: 10.1007/s00285-006-0377-3
2004
Tracking seismic waves (Conference Paper)
Parsons, R. J. (2004). Tracking seismic waves. In Target Tracking 2004: Algorithms and Applications. IEE. doi:10.1049/ic:20040055DOI: 10.1049/ic:20040055
2001
Irving, A. C., McNeile, C., Michael, C., Sharkey, K. J., & Wittig, H. (2001). Is the up-quark massless?. Physics Letters B, 518(3-4), 243-251. doi:10.1016/s0370-2693(01)01062-0DOI: 10.1016/s0370-2693(01)01062-0
Is the up-quark massless? (Journal article)
Irving, A. C., McNeile, C., Michael, C., Sharkey, K. J., & Wittig, H. (2001). Is the up-quark massless?. PHYSICS LETTERS B, 518(3-4), 243-251. doi:10.1016/S0370-2693(01)01062-0DOI: 10.1016/S0370-2693(01)01062-0
Allton, C. R., Booth, S. P., Bowler, K. C., Garden, J., Hart, A., Hepburn, D., . . . Wittig, H. (2002). Effects of nonperturbatively improved dynamical fermions in QCD at fixed lattice spacing -: art. no. 054502. PHYSICAL REVIEW D, 65(5). doi:10.1103/PhysRevD.65.054502DOI: 10.1103/PhysRevD.65.054502
McNeile, C., Michael, C., & Sharkey, K. J. (2002). Flavor singlet mesons in QCD. PHYSICAL REVIEW D, 65(1). doi:10.1103/PhysRevD.65.014508DOI: 10.1103/PhysRevD.65.014508
2000
Boucaud, P., Burgio, G., Di Renzo, F., Leroy, J. P., Micheli, J., Parrinello, C., . . . Sharkey, K. (2000). Lattice calculation of 1/<i>p</i><SUP>2</SUP> corrections to α<i><sub>s</sub></i> and of Λ<sub>QCD</sub> in the (<i>MOM</i>)over-tilde scheme.. JOURNAL OF HIGH ENERGY PHYSICS, (4). doi:10.1088/1126-6708/2000/04/006DOI: 10.1088/1126-6708/2000/04/006
Lattice calculation of 1/p<sup>2</sup> corrections to α<inf>s</inf> and of Λ<inf>QCD</inf> in the MOM scheme (Journal article)
Boucaud, P., Burgio, G., Di Renzo, F., Leroy, J. P., Micheli, J., Parrinello, C., . . . Sharkey, K. (2000). Lattice calculation of 1/p<sup>2</sup> corrections to α<inf>s</inf> and of Λ<inf>QCD</inf> in the MOM scheme. Journal of High Energy Physics, 4(4).
