Newcastle University

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• Jow H, Boys RJ, Wilkinson DJ. A comparative genomics approach to the identification of QTL candidate genes. Revstat Statistical Journal 2011, 9(1), 1-17.
• Ryan DA, Sarson GR. A coupled low order dynamo/turbulent shell model for geomagnetic field variations and reversals. Physics of the Earth and Planetary Interiors 2011, 188(3-4), 214-234.
• Choi T, Shi JQ, Wang B. A Gaussian process regression approach to a single-index model. Journal of Nonparametric Statistics 2011, 23(1), 21-36.
• Spagnoli A, Henderson R, Boys RJ, Houwing-Duistermaat JJ. A hidden Markov model for informative dropout in longitudinal response data with crisis states. Statistics and Probability Letters 2011, 81(7), 730-738.
• Atyeo J, Walshaw D. A hierarchical model for extreme rainfall incorporating regional variation, temporal trend and local dependence. Applied Statistics 2011. In Preparation.
• Stare J, PoharPerme M, Henderson R. A measure of explained variation for event history data. Biometrics 2011, 67(3), 750–759.
• Parker NG, Mather ML, Morgan SP, Povey MJW. A preliminary study of acoustic propagation in thick foam tissue scaffolds composed of poly(lactic-co-glycolic acid). Journal of Physics: Conference Series 2011, 269(1), 012019.
• Monness E, Coleman SY. A short note on Variograms and Correlograms. Norway: Hedmark University College, 2011.
• Gilks WR, Nye TMW, Lio P. A Variance-Components Model for Distance-Matrix Phylogenetic Reconstruction. Statistical Applications in Genetics and Molecular Biology 2011, 10(1), 16.
• Huynh NT, He D, Hayes-Gill BR, Crowe JR, Walker JG, Mather ML, Rose FRAJ, Parker NG, Povey MJW, Morgan SP. Application of a maximum likelihood algorithm to ultrasound modulated optical tomography. In: Proceedings of SPIE, Photons Plus Ultrasound: Imaging and Sensing. 2011, San Francisco, California, USA: SPIE - International Society for Optical Engineering.
• Duncan AJ, Remeslennikov VN. Automorphisms of Partially Commutative Groups II: Combinatorial Subgroups. 2011, 44. Submitted.
• Lei G, Boys RJ, Gillespie CS, Greenall AJ, Wilkinson DJ. Bayesian inference for sparse VAR(1) models, with application to time course microarray data. Journal of Biometrics and Biostatistics 2011, 2(127).
• Golightly A, Wilkinson DJ. Bayesian parameter inference for stochastic biochemical network models using particle Markov chain Monte Carlo. Interface Focus 2011, 1(6), 807-820.
• Moss IG. Black holes with current loops revisited. Physical Review D 2011, 83(12), 124046.
• Cossidente A, King OH. Blocking sets of H(n,q²) with respect to generators. Journal of Combinatorial Theory, Series A 2011, 118(4), 1212–1217.
• Agler J, Young NJ. Boundary Nevanlinna-Pick interpolation via reduction and augmentation. Mathematische Zeitschrift 2011, 268(3-4), 791-817.
• Peyerimhoff N, Vdovina A. Cayley graph expanders and groups of finite width. Journal of Pure and Applied Algebra 2011, 215(11), 2780-2788.
• Robertson G. Centralizers in Ã2 groups. Journal of Group Theory 2011, 14(6), 881-890.
• Brandt K, Fawcett L, Haldar S, Seal CJ. Changes in markers of cardiovascular disease risk in healthy volunteers consuming increasing doses of either wholegrain wheat or wholegrain rye. American Journal of Clinical Nutrition 2011.
• Huynh NT, Parker NG, He D, Ruan H, Hayes-Gill BR, Mather ML, Crowe JA, Rose FRAJ, Povey MJW, Morgan SP. Characterisation of tissue scaffolds using optics and ultrasound. In: Proceedings of SPIE, Photons Plus Ultrasound: Imaging and Sensing. 2011, San Francisco, California, USA: SPIE - International Society for Optical Engineering.
• Henderson R, Schumacher M. Clinical epidemiology and individualized medicine. Biometrical Journal 2011. Weinheim, Germany: Wiley - VCH Verlag GmbH & Co. KGaA, 53(2), 167-169.
• Parker NP, Allen AJ, Barenghi CF, Proukakis NP. Coherent cross-talk and parametric driving of matter-wave vortices. Submitted (arXiv:1109.0039) 2011. Submitted.
• Pohl S, Tu WY, Aldridge PD, Gillespie C, Hahne H, Mader U, Read TD, Harwood CR. Combined proteomic and transcriptomic analysis of the response of Bacillus anthracis to oxidative stress. Proteomics 2011, 11(15), 3036-3055.
• Rahman TJ, Mayosi BM, Hall D, Avery PJ, Stewart PM, Connell JMC, Watkins H, Keavney B. Common Variation at the 11-beta Hydroxysteroid Dehydrogenase Type 1 Gene Is Associated With Left Ventricular Mass. Circulation: Cardiovascular Genetics 2011, 4(2), 156-U196.
• Avery PJ, Patel SK, Ibrahim IM, Walker M, Keavney BD. Common variation in the adiponectin gene has an effect on systolic blood pressure. Journal of Human Hypertension 2011, 25(12), 719-724.
• Hall D, Mayosi BM, Rahman TJ, Avery PJ, Watkins HC, Keavney B. Common variation in the CD36 (fatty acid translocase) gene is associated with left-ventricular mass. Journal of Hypertension 2011, 29(4), 690-695.
• Cockburn SP, Negretti A, Proukakis NP, Henkel C. Comparison between microscopic methods for finite temperature Bose gases. Physical Review A 2011, 83(4), 043619.
• Haldar S, Seal CJ, Beckmann M, Fawcett L. Comparison of alkylresorcinols and mammalian lignans as biomarkers of either wholegrain wheat or wholegrain rye intake. British Journal of Nutrition 2011.
• Biss TT, Avery PJ, Walsh PM, Kamali F. Comparison of time within therapeutic INR range with percentage INR within therapeutic range for assessing long-term anticoagulation control in children [reply to a rebuttal]. Journal of Thrombosis and Haemostasis 2011, 9(11), 2332-2333.
• Courtot M, Juty N, Knupfer C, Waltemath D, Zhukova A, Drager A, Dumontier M, Finney A, Golebiewski M, Hastings J, Hoops S, Keating S, Kell DB, Kerrien S, Lawson J, Lister A, Lu J, Machne R, Mendes P, Pocock M, Rodriguez N, Villeger A, Wilkinson DJ, Wimalaratne S, Laibe C, Hucka M, LeNovere N. Controlled vocabularies and semantics in systems biology. Molecular Systems Biology 2011, 7, 543.
• Courtot M, Juty N, Knupfer C, Waltemath D, Zhukova A, Drager A, Dumontier M, Finney A, Golebiewski M, Hastings J, Hoops S, Keating S, Kell DB, Kerrien S, Lawson J, Lister A, Lu J, Machne R, Mendes P, Pocock M, Rodriguez N, Villeger A, Wilkinson DJ, Wimalaratne S, Laibe C, Hucka M, Le Novere N. Controlled vocabularies and semantics in systems biology. Molecular Systems Biology 2011, 7, 543.
• Weile J, Pocock M, Cockell SJ, Lord P, Dewar JM, Wilkinson D, Lydall D, Hallinan J, Wipat A. Customisable views on a semantically integrated network for systems biology. Bioinformatics 2011, 27(9), 1299-1306.
• Antony J, Coleman S, Montgomery D, Anderson M, Silvestrini R. Design of Experiments for Non-Manufacturing Processes: Benefits, Challenges and Some Examples. Proceedings of the Institution of Mechanical Engineers, Part B: Journal of Engineering Manufacture 2011, 225(11), 2078-2087.
• Walshaw D. Detection limits. Encyclopedia of Environmentrics 2011. In Preparation.
• Pearce KF, Norden J, Collin M, Hromadnikova I, Sedlacek P, Cornelissen JJ, Wolff D, Aubano A, Holtick U, Scheid C, Socie G, Greinix H, Holler E, Dickinson AM. Development of an algorithm to predict acute GvHD and chronic GvHD in HLA-matched sibling, non-T cell depleted haematopoietic stem cell transplants. In: Bone Marrow Transplantation: 37th European Group for Bone and Marrow Transplantation. 2011, Paris, France: Nature Publishing Group.
• Golightly A, Boys RJ. Discussion to "Riemann manifold Langevin and Hamiltonian Monte Carlo methods" by Girolami and Calderhead. Journal of the Royal Statistical Society, Series B: Statistical Methodology 2011, 73(2), 181-182.
• Toms DJ. Does gravity correct gauge couplings? [reply]. Nature 2011, 479(7374), E6.
• Favier B, Bushby PJ. Dynamos in rotating compressible convection. In: 13th European Turbulence Conference (ETC13). 2011, Warsaw, Poland: IOP Science.
• Moore O, Cloke DJ, Avery PJ, Beasley I, Deehan DJ. English Premiership Academy knee injuries: Lessons from a 5 year study. Journal of Sports Sciences 2011, 29(14), 1535-1544.
• Fawcett L, Walshaw D. Extreme Values: Statistical Analysis using R. 2011. In Preparation.
• Agler J, McCarthy JE, Young NJ. Facial behaviour of analytic functions on the bidisk. Bulletin of the London Mathematical Society 2011, 43(3), 478-494.
• Serradilla J, Shi JQ, Morris AJ. Fault detection based on Gaussian process latent variable models. Chemometrics and Intelligent Laboratory Systems 2011, 109(1), 9-21.
• Cockburn SP, Nistazakis HE, Horikis TP, Kevrekidis PG, Proukakis NP, Frantzeskakis DJ. Fluctuating and dissipative dynamics of dark solitons in quasicondensates. Physical Review A 2011, 84(4), 043640.
• Walshaw D. Generalized extreme value distribution. Encyclopedia of Environmetrics 2011. In Preparation.
• Chang H, Lawless C, Addinall SG, Oexle S, Taschuk M, Wipat A, Wilkinson DJ, Lydall D. Genome-Wide Analysis to Identify Pathways Affecting Telomere-Initiated Senescence in Budding Yeast. G3: Genes, Genomes, Genetics 2011, 1(3), 197-208.
• Rahman TJ, Walker EA, Mayosi BM, Hall DH, Avery PJ, Connell JMC, Watkins H, Stewart PM, Keavney B. Genotype at the P554L Variant of the Hexose-6 Phosphate Dehydrogenase Gene Is Associated with Carotid Intima-Medial Thickness. PLoS One 2011, 6(8), e23248.
• Cameron KM, Golightly A, Miwa S, Speakman J, Boys R, von Zglinicki T. Gross energy metabolism in mice under late onset, short term caloric restriction. Mechanisms of Ageing and Development 2011, 132(4), 202-209.
• Holt D, Rees S, Roever C. Groups with context-free conjugacy problems. International Journal of Algebra and Computation 2011, 21(1-2), 193-216.
• Gourdeau F, Gronbaek N, White MC. Homology and cohomology of Rees semigroup algebras. Studia Mathematica 2011, 202(2), 105-121.
• Robertson G. Invariant distributions on projective spaces over local fields. Proceedings of the American Mathematical Society 2011, 139(8), 2705-2711.
• Murdoch M, McColl EM, Howel D, Deverill M, Buckley B, Lucas M, Chapple CR, Tincello DG, Armstrong N, Brennand C, Shen J, Vale L, Hilton P. INVESTIGATE-I (INVasive Evaluation before Surgical Treatment of Incontinence Gives Added Therapeutic Effect?): study protocol for a mixed methods study to assess the feasibility of a future randomised controlled trial of the clinical utility of invasive urodynamic testing. Trials 2011, 12(1), 169.
• Houghton SM, Bushby PJ. Localised plumes in three-dimensional compressible magnetoconvection. Monthly Notices of the Royal Astronomical Society 2011, 412(1), 555-560.
• Allen AJ, Jackson DP, Barenghi CF, Proukakis NP. Long-range sound-mediated dark-soliton interactions in trapped atomic condensates. Physical Review A 2011, 83(1), 013613.
• Fletcher A, Beck R, Shukurov A, Berkhuijsen EM, Horellou C. Magnetic fields and spiral arms in the galaxy M51. Monthly Notices of the Royal Astronomical Society 2011, 412(4), 2396-2416.
• Wright TM, Proukakis NP, Davis MJ. Many-body physics in the classical-field description of a degenerate Bose gas. Physical Review A 2011, 84(2), 023608.
• Culpin R, Pearce K, Bailey J, Pointon J, Sunter N, Bailey J, Evans P, Allsup D, Allan J, Mainou-Fowler T. MicroRNAs in B-cell chronic lymphocytic leukaemia (B-CLL): mature microRNAs of the miR-17-92 cluster predict for treatment free survival (TFS) in patients with B-CLL. In: International Journal of Molecular Medicine. 2011, Spandidos Publications.
• VanEck CL, Brown JC, Stil JM, Rae K, Mao SA, Gaensler BM, Shukurov A, Taylor AR, Haverkorn M, Kronberg PP, McClure-Griffiths NM. Modeling the Magnetic Field in the Galactic Disk Using New Rotation Measure Observations from the Very Large Array. Astrophysical Journal 2011, 728(2), 97.
• Milner P, Gillespie CS, Wilkinson DJ. Moment closure approximations for stochastic kinetic models with rational rate laws. Mathematical Biosciences 2011, 231(2), 99-104.
• Tan HL, Glen EA, Topf AL, Hall DH, O'Sullivan JJ, Sneddon L, Wren C, Avery P, Lewis RJ, ten Dijke P, Arthur HM, Goodship JA, Keavney BD. Non-synonymous SMAD6 mutations impaired inhibition of BMP signalling in patients with congenital cardiovascular malformation. In: Heart: Annual Conference of the British Cardiovascular Society (BCS). 2011, Manchester, UK: BMJ Group.
• Caldwell GS, Fitzer S, Gillespie CS, Pickavance G, Turnbull E, Bentley MG. Ocean acidification takes sperm back in time. Invertebrate Reproduction and Development 2011, 55(4), 217-221.
• Cossidente A, King OH. On a family of minimal blocking sets of the Hermitian surface. Journal of Combinatorial Designs 2011, 19(4), 313-316.
• Henderson R, Ansell P, Alshibani D. Optimal dynamic treatment methods. Revstat Statistical Journal 2011, 9(1), 19-36.
• Shaw L, Price C, McLure S, Howel D, McColl E, Ford GA. Paramedic Initiated Lisinopril for Acute Stroke Treatment (PIL-FAST): study protocol for a pilot randomised controlled trial. Trials 2011, 12(1), 152.
• Wilkinson DJ. Parameter inference for stochastic kinetic models of bacterial gene regulation. In: Ninth Valencia International Meeting on Bayesian Statistics. 2011, Benidorm, Spain: Oxford Science Publications.
• Yi G, Shi JQ, Choi T. Penalized Gaussian Process Regression and Classification for High-Dimensional Nonlinear Data. Biometrics 2011, 67(4), 1285-1294.
• Nye TMW. Principal components analysis in the space of phylogenetic trees. Annals of Statistics 2011, 39(5), 2716-2739.
• Avery PJ, Jorgensen A, Hamberg AK, Wadelius M, Pirmohamed M, Kamali F, on behalf of the EU-PACT Study Group. Proposal for an individualised pharmacogenetics-based warfarin initiation dose regimen for patients commencing anticoagulation therapy. Clinical Pharmacology and Therapeutics 2011, 90(5), 701-706.
• Holm T, Jorgensen P, Rubey M. Ptolemy diagrams and torsion pairs in the cluster category of Dynkin type An. Journal of Algebraic Combinatorics 2011, 34(3), 507-523.
• Toms DJ. Quadratic divergences and quantum gravitational contributions to gauge coupling constants. Physical Review D 2011, 84, 084016.
• Addinall SG, Holstein EM, Lawless C, Yu M, Chapman K, Banks AP, Ngo HP, Maringele L, Taschuk M, Young A, Ciesiolka A, Lister AL, Wipat A, Wilkinson DJ, Lydall D. Quantitative Fitness Analysis Shows That NMD Proteins and Many Other Protein Complexes Suppress or Enhance Distinct Telomere Cap Defects. PLoS Genetics 2011, 7(4), e1001362.
• Cockburn SP, Gallucci D, Proukakis NP. Quantitative study of quasi-one-dimensional Bose gas experiments via the stochastic Gross-Pitaevskii equation. Physical Review A (submitted); arXiv:1103.2740 (cond-mat.quant-gas) 2011. Submitted.
• Cockburn SP, Gallucci D, Proukakis NP. Quantitative study of quasi-one-dimensional Bose gas experiments via the stochastic Gross-Pitaevskii equation. Physical Review A 2011, 84(2), 023613.
• Baggaley AW, Barenghi CF. Quantum turbulent velocity statistics and quasiclassical limit. Physical Review E 2011, 84(6), 067301.
• Ball HL, Ward Platt MP, Howel D, Russell C. Randomised trial of sidecar use on breastfeeding duration (NECOT). Archives of Disease in Childhood 2011, 96, 630-634.
• Seddon YM, Farrow M, Guy JH, Edwards SA. Real time monitoring of finisher pig water consumption: Investigation at pen level. In: XVth International Society for Animal Hygiene Congress. 2011, Vienna, Austria.
• Moss IG, Omotani JT, Saffin PM. Reducing heterotic M-theory to five dimensional supergravity on a manifold with boundary. Journal of High Energy Physics 2011, (10), 088.
• Wacks DH, Barenghi CF. Shell model of superfluid turbulence. Physical Review B 2011, 84(18), 184505.
• Wacks DH, Barenghi CF. Shell Models of Superfluid Turbulence. In: Journal of Physics: Conference Series, European Turbulence Conference ETC13. 2011, Warsaw, Poland: Institute of Physics Publishing Ltd.
• Wacks DH, Barenghi CF. Shell Models of Superfluid Turbulence. In: 13th European Turbulence Conference: Reacting, Compressible, Multi-phase and Cryogenic Flows. 2011, Warsaw, Poland: IOS Publishing Ltd.
• Choi Y, Gourdeau F, White MC. Simplicial cohomology of band semigroup algebras. Proceedings of the Royal Society of Edinburgh, Section A: Mathematics 2011, (accepted).
• Helm JL, Barenghi CF, Youd AJ. Slowing down of vortex rings in Bose-Einstein condensates. Physical Review A 2011, 83(4), 045601.
• Holm T, Jorgensen P, Yang D. Sparseness of t-structures and negative Calabi-Yau dimension in triangulated categories generated by a spherical object. 2011. Submitted.
• Baggaley AW, Barenghi CF. Spectrum of turbulent Kelvin-waves cascade in superfluid helium. Physical Review B 2011, 83(13), 134509.
• Wilkinson DJ. Stochastic dynamical systems. In: Stumpf, M; Balding, DJ; Girolami, M, ed. Handbook of Statistical Systems Biology. Wiley-Blackwell Publishing Ltd, 2011, pp.359-375.
• Wilkinson DJ. Stochastic Modelling for Systems Biology. Chapman & Hall/CRC Press, 2011.
• Daskalopoulus G, Mese C, Vdovina A. Superrigidity of hyperbolic buildings. Geometric and Functional Analysis 2011, 21(4), 905-919.
• Wockenforth R, Gillespie CS, Jaffray B. Survival of children following Nissen fundoplication. British Journal of Surgery 2011, 98(5), 680-685.
• Jorgensen P, Kato K. Symmetric Auslander and Bass categories. Mathematical Proceedings of the Cambridge Philosophical Society 2011, 150, 227-240.
• Taylor LB, van Bijnen RMW, O'Dell DHJ, Parker NG, Kokkelmans SJJMF, Martin AM. Synthetic magnetohydrodynamics in Bose-Einstein condensates and routes to vortex nucleation. Physical Review A 2011, 84(2), 021604.
• Holmes MJ, Parker NG, Povey MJW. Temperature dependence of bulk viscosity in water using acoustic spectroscopy. Journal of Physics: Conference Series 2011, 269(1), 012011.
• Dall'Olio GM, Marino J, Schubert M, Keys KL, Stefan MI, Gillespie CS, Poulain P, Shameer K, Sugar R, Invergo BM, Jensen LJ, Bertranpetit J, Laayouni H. Ten Simple Rules for Getting Help from Online Scientific Communities. PLoS Computational Biology 2011, 7(9), e1002202.
• Tebbs R, Youd AJ, Barenghi CF. The Approach to Vortex Reconnection. Journal of Low Temperature Physics 2011, 162(3-4), 314-321.
• Agler J, Lykova ZA, Young NJ. The boundary Carathéodory–Fejér interpolation problem. Journal of Mathematical Analysis and Applications 2011, 382, 645-662.
• Gourdeau F, White MC. The cyclic and simplicial cohomology of the bicyclic semigroup algebra. Quarterly Journal of Mathematics 2011, 62(3), 607-624.
• Bushby PJ, Proctor MRE, Weiss NO. The influence of stratification upon small-scale convectively-driven dynamos. In: Proceedings of the International Astronomical Union: IAU Symposium on ''Astrophysical Dynamics: From Stars to Galaxies. 2011, Nice, France: Cambridge University Press.
• Bassom AP, Soward AM, Starchenko SV. The onset of strongly localized thermal convection in rotating spherical shells. Journal of Fluid Mechanics 2011, 689, 376-416.
• Campbell CG. The spin evolution of a strongly magnetic star due to interaction with an accretion disc. Monthly Notices of the Royal Astronomical Society 2011, 414(4), 3071-3083.
• Baggaley AW, Barenghi CF. Tree Method for Quantum Vortex Dynamics. Journal of Low Temperature Physics 2011, 166(1-2), 3-20.
• Howel D. Trends in the prevalence of obesity and overweight in English adults by age and birth cohort, 1991-2006. Public Health Nutrition 2011, 14(1), 27-33.
• White AC, Proukakis NP, Youd AJ, Baggaley AW, Barenghi CF. Turbulence in a Bose-Einstein condensate. In: Journal of Physics: Conference Series, European Turbulence Conference ETC13. 2011, Warsaw, Poland: Institute of Physics Publishing Ltd.
• White AC, Proukakis NP, Youd AJ, Wacks DH, Baggaley AW, Barenghi CF. Turbulence in a Bose-Einstein condensate. In: 3th European Turbulence Conference (ETC): Vorticity Dynamics. 2011, Warsaw, Poland: Institute of Physics Publishing Ltd.
• Baggaley AW, Barenghi CF. Turbulent cascade of Kelvin waves on vortex filaments. In: Journal of Physics: Conference Series, European Turbulence Conference ETC13. 2011, Warsaw, Poland: Institute of Physics Publishing Ltd.
• Baggaley AW, Barenghi CF. Turbulent cascade of Kelvin Waves on vortex filaments. In: 13th European Turbulence Conference: Vorticity Dynamics. 2011, Warsaw, Poland: Institute of Physics Publishing Ltd.
• Galantucci L, Barenghi CF, Sciacca M, Quadrio M, Luchini P. Turbulent Superfluid Profiles in a Counterflow Channel. Journal of Low Temperature Physics 2011, 162(3-4), 354-360.
• Sinha A, Avery P, Turner S, Bailey S, Cheetham T. Vitamin D Status in Paediatric Patients With Cancer. Pediatric Blood & Cancer 2011, 57(4), 594-598.
• Biss TT, Avery PJ, Brandao LR, Chalmers EA, Williams MD, Grainger JD, Leathart JB, Hanley JP, Daly AK, Kamali F. VKORC1 and CYP2C9 genotype and patient characteristics explain a large proportion of the variability in warfarin dose requirement among children. Blood 2011, 119(3), 868-873.
• Baggaley AW, Barenghi CF. Vortex-density fluctuations in quantum turbulence. Physical Review B 2011, 84(2), 020504.
• Biss TT, Avery PJ, Walsh PM, Kamali F. Warfarin treatment outcomes in children monitored at home with a point-of-care device. Thrombosis and Haemostasis 2011, 105(6), 1103-1105.