Application of non-linear mathematics and stochastic modelling to biological systems

Project (past)

Project dates01 Apr 1999 to end of 31 Mar 2008
FunderBiotechnology and Biological Sciences Research Council
Project number4213
DepartmentBiomathematics and Bioinformatics (BAB)
Research fish codeBBS/E/C/00004213
Grant IDBBS/E/C/00004213

Outputs

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A rational basis for design of wheat canopy ideotypes for UK environments. Final report for DEFRA project AR0906

D1 - Technical reports: non-confidential
Parker, S., Semenov, M. A. and Lawless, C. 2003. A rational basis for design of wheat canopy ideotypes for UK environments. Final report for DEFRA project AR0906.

Analysis of convergence of an evolutionary algorithm with self-adaptation using a stochastic Lyapunov function

A - Papers appearing in refereed journals
Semenov, M. A. and Terkel, D. A. 2003. Analysis of convergence of an evolutionary algorithm with self-adaptation using a stochastic Lyapunov function. Evolutionary Computation. 11, pp. 363-379.

Analysis of evolutionary search with mutators using a stochastic Lyapunov function

C1 - Edited contributions to conferences/learned societies
Semenov, M. A. 2001. Analysis of evolutionary search with mutators using a stochastic Lyapunov function. Proceedings Genetics and Evolutionary Computation Conference (GECCO 2001), San Francisco, 8-11 July 2001 . pp. 372-376

Assessing lead-time for predicting wheat growth using a crop simulation model

A - Papers appearing in refereed journals
Lawless, C. and Semenov, M. A. 2005. Assessing lead-time for predicting wheat growth using a crop simulation model. Agricultural and Forest Meteorology. 135 (1-4), pp. 302-313. https://doi.org/10.1016/j.agrformet.2006.01.002

Assessing predictive skill of models to optimise crop management and design. Final report on Defra project AR0909

D1 - Technical reports: non-confidential
Sylvester-Bradley, R., Semenov, M. A., Lawless, C., Jaggard, K. W., Qi, A. and Foulkes, M. J. 2005. Assessing predictive skill of models to optimise crop management and design. Final report on Defra project AR0909.

Calculation of multiple-trait sire reliability for traits included in a dairy cattle fertility index

A - Papers appearing in refereed journals
Banos, G., Brotherstone, S., Thompson, R., Woolliams, J. A., Wall, E. and Coffey, M. P. 2004. Calculation of multiple-trait sire reliability for traits included in a dairy cattle fertility index. Animal Science. 79 (1), pp. 1-9. https://doi.org/10.1017/S1357729800054473

Climate change, non-point pollution and land use: modelling interactions (End of Award report to ESRC on Rural Economy and Land Use Programme project RES 224 25 0002)

D1 - Technical reports: non-confidential
Hanley, N., Aftab, A., Black, A. and Semenov, M. A. 2005. Climate change, non-point pollution and land use: modelling interactions (End of Award report to ESRC on Rural Economy and Land Use Programme project RES 224 25 0002).

Comments on the use of statistical tests in the comparison of stochastic weather generators by Qian et al. (2004)

A - Papers appearing in refereed journals
Semenov, M. A. and Welham, S. J. 2004. Comments on the use of statistical tests in the comparison of stochastic weather generators by Qian et al. (2004). Climate Research. 28 (1), pp. 83-84. https://doi.org/10.3354/cr028083

Comparison between deterministic and probabilistic algorithms of bounded Kolmogorov complexity

C1 - Edited contributions to conferences/learned societies
Semenov, M. A. 2003. Comparison between deterministic and probabilistic algorithms of bounded Kolmogorov complexity. Proceedings Genetic and Evolutionary Computation Conference, Chicago, 12-16 July 2003. pp. 260-263

Convergence velocity of an evolutionary algorithm with self-adaptation

C1 - Edited contributions to conferences/learned societies
Semenov, M. A. 2002. Convergence velocity of an evolutionary algorithm with self-adaptation. Proceedings Genetic and Evolutionary Computation Conference, GECCO 2002, New York, 9-13 July 2002 . pp. 210-214

Crop responses to climatic variation

A - Papers appearing in refereed journals
Porter, J. R. and Semenov, M. A. 2005. Crop responses to climatic variation. Philosophical Transactions of the Royal Society B-Biological Sciences. 360 (1463), pp. 2021-2035. https://doi.org/10.1098/rstb.2005.1752

Deconvoluting nitrogen use efficiency in wheat: a simulation study

A - Papers appearing in refereed journals
Semenov, M. A., Jamieson, P. D. and Martre, P. 2007. Deconvoluting nitrogen use efficiency in wheat: a simulation study. European Journal of Agronomy. 26, pp. 283-294. https://doi.org/10.1016/j.eja.2006.10.009

Development of high-resolution UKCIP02-based climate change scenarios in the UK

A - Papers appearing in refereed journals
Semenov, M. A. 2007. Development of high-resolution UKCIP02-based climate change scenarios in the UK. Agricultural and Forest Meteorology. 144 (1-2), pp. 127-138. https://doi.org/10.1016/j.agrformet.2007.02.003

Effects of elevated CO2 and drought on wheat: testing crop simulation models for different experimental and climatic conditions

A - Papers appearing in refereed journals
Ewert, E., Rodriguez, D., Jamieson, P., Semenov, M. A., Mitchell, R. A. C., Goudriaan, J., Porter, J. R., Kimball, B. A., Pinter, P. J. Jr, Manderscheid, R., Weigel, H-J., Fangmeier, A., Fereres, E. and Villalobos, F. 2002. Effects of elevated CO2 and drought on wheat: testing crop simulation models for different experimental and climatic conditions. Agriculture, Ecosystems & Environment. 93 (1-3), pp. 249-266. https://doi.org/10.1016/S0167-8809(01)00352-8

Effects of pregnancy on daily milk yield of Holstein-Friesian dairy cattle

A - Papers appearing in refereed journals
Brotherstone, S., Thompson, R. and White, I. M. S. 2004. Effects of pregnancy on daily milk yield of Holstein-Friesian dairy cattle. Livestock Production Science. 87 (2-3), pp. 265-269. https://doi.org/10.1016/j.livprodsci.2003.07.014

Factor analytic multiplicative mixed models in the analysis of multi-environment forest field trials

C1 - Edited contributions to conferences/learned societies
Resende, M. D. V. and Thompson, R. 2004. Factor analytic multiplicative mixed models in the analysis of multi-environment forest field trials. Borralho, N. (ed.) Eucalyptus in a Changing World. Proceedings of the IUFRO Conference, Aveiro, 11-15 October 2004 .

Factor analytic multiplicative mixed models in the analysis of multiple experiments

A - Papers appearing in refereed journals
De Resende, M. D. V. and Thompson, R. 2004. Factor analytic multiplicative mixed models in the analysis of multiple experiments. Revista de Matemática e Estatística, São Paulo,. 22 (2), pp. 31-52.

Improving wheat model accuracy and suitability for regional impact assessment. Final report of the IMPETUS European Commission Project ENV4-CT97-0496

D1 - Technical reports: non-confidential
Mitchell, R. A. C. and Semenov, M. A. 2001. Improving wheat model accuracy and suitability for regional impact assessment. Final report of the IMPETUS European Commission Project ENV4-CT97-0496. IACR Rothamsted Experimental Station, Harpenden.

Individual based model of slug population and spatial dynamics

A - Papers appearing in refereed journals
Choi, Y. H., Bohan, D. A., Potting, R. P. J., Semenov, M. A. and Glen, D. M. 2006. Individual based model of slug population and spatial dynamics. Ecological Modelling. 190, pp. 336-350. https://doi.org/10.1016/j.ecolmodel.2005.04.019

Linking climate change predictions with crop simulation models

C1 - Edited contributions to conferences/learned societies
Semenov, M. A. 2003. Linking climate change predictions with crop simulation models. Proceedings BCPC International Congress - Crop Science and Technology 2003 . pp. 1181-1188

Methods for providing the first prevalence estimates of opiate use in Western Australia

A - Papers appearing in refereed journals
Choi, Y. H. and Comiskey, C. M. 2003. Methods for providing the first prevalence estimates of opiate use in Western Australia. International Journal of Drug Policy. 14, pp. 297-305.

Modelling a slug population using differential equations

C2 - Non-edited contributions to conferences
Choi, Y-H., Powers, S. J., Bohan, D. A., Wiltshire, C. W., Glen, D. M. and Semenov, M. A. 2001. Modelling a slug population using differential equations. Abstracts Meeting of the OILB/IOBC Working Group on Integrated Control of Soil Pests, Subgroup on Integrated Control of Slugs and Snails, Lyons, 8-9 March 2001 .

Modelling impacts of climate change on wheat yields in England and Wales: assessing drought risks

A - Papers appearing in refereed journals
Richter, G. M. and Semenov, M. A. 2005. Modelling impacts of climate change on wheat yields in England and Wales: assessing drought risks. Agricultural Systems. 84 (1), pp. 77-97. https://doi.org/10.1016/j.agsy.2004.06.011

Modelling protein content and composition in relation to crop nitrogen dynamics for wheat

A - Papers appearing in refereed journals
Martre, P., Jamieson, P. D., Semenov, M. A., Zyskowski, R. F., Porter, J. R. and Triboi, E. 2006. Modelling protein content and composition in relation to crop nitrogen dynamics for wheat. European Journal of Agronomy. 25, pp. 138-154. https://doi.org/10.1016/j.eja.2006.04.007

Modelling protein content and composition in wheat

C1 - Edited contributions to conferences/learned societies
Jamieson, P. D., Martre, P., Samoil, V., Porter, J. R., Zyskowski, R., Semenov, M. A. and Triboi, E. 2004. Modelling protein content and composition in wheat. Fischer, T. (ed.) New Directions for a Diverse Planet: Proceedings 4th International Crop Science Congress, Brisbane, 26-September-1 October 2002 . Regional Institute, Gosford. pp. www.cropscience.org.au

Modelling the dynamics of slug and nematode interaction incorporating response to environmental variables

C2 - Non-edited contributions to conferences
Choi, Y-H., Powers, S. J., Bohan, D. A., Semenov, M. A., Glen, D. M., Wiltshire, C. W. and Brain, P. 2001. Modelling the dynamics of slug and nematode interaction incorporating response to environmental variables. Abstracts IMA Conference on Mathematical Modelling and Statistical Analysis of Infectious Diseases, Cardiff, 11-13 September 2001 .

Modelling the effects of CO2 and drought on wheat for different climatic conditions and cultivars

D1 - Technical reports: non-confidential
Ewert, F. 2001. Modelling the effects of CO2 and drought on wheat for different climatic conditions and cultivars. IACR Rothamsted Experimental Station, Harpenden.

Modelling the transmission dynamics of Ross River virus in Southwestern Australia

A - Papers appearing in refereed journals
Choi, Y. H., Cominskey, C., Lindsay, M. D. A., Cross, J. A. and Anderson, M. 2002. Modelling the transmission dynamics of Ross River virus in Southwestern Australia. IMA Journal of Mathematics Applied in Medicine and Biology. 19, pp. 61-74.

Multivariate character process models for the analysis of two or more correlated function-valued traits

A - Papers appearing in refereed journals
Jaffrezic, F., Thompson, R. and Pletcher, S. D. 2004. Multivariate character process models for the analysis of two or more correlated function-valued traits. Genetics. 168 (1), pp. 477-487. https://doi.org/10.1534/genetics.103.019554

Performance of the models with multiple-site and regional observed wheat yield data

D1 - Technical reports: non-confidential
Richter, G. M., Ewert, F., Rodrigues, D. and Fereres, E. 2001. Performance of the models with multiple-site and regional observed wheat yield data. IACR Rothamsted Experimental Station, Harpenden.

Perspectives of ANOVA, REML and a general linear mixed model

B - Book chapters etc edited externally
Cullis, B. R., Smith, A. B. and Thompson, R. 2004. Perspectives of ANOVA, REML and a general linear mixed model. in: Adams, N., Stephens, D., Hand, D. J. and Crowder, M. (ed.) Methods and models in statistics: in honour of Professor John Nelder FRS Imperial College Press. pp. 53-94

Predicting a success of biological control of pest slugs using the slug-pathogenic nematode against pest slugs. Research grant report for grant MAF12241

D1 - Technical reports: non-confidential
Choi, Y., Semenov, M. A., Bohan, D. A. and Glen, D. M. 2005. Predicting a success of biological control of pest slugs using the slug-pathogenic nematode against pest slugs. Research grant report for grant MAF12241.

Prospects for statistical methods in animal breeding

A - Papers appearing in refereed journals
Thompson, R. and Mantysaari, E. 2004. Prospects for statistical methods in animal breeding. Journal of the Indian Society of Agricultural Statistics. 57 (Special Volume), pp. 15-25.

Quantifying effects of simple wheat traits on yield in water-limited environments using a modelling approach

A - Papers appearing in refereed journals
Semenov, M. A., Martre, P. and Jamieson, P. D. 2009. Quantifying effects of simple wheat traits on yield in water-limited environments using a modelling approach. Agricultural and Forest Meteorology. 149 (6-7), pp. 1095-1104. https://doi.org/10.1016/j.agrformet.2009.01.006

Quantifying the effect of uncertainty in soil moisture characteristics on plant growth using a crop simulation model

A - Papers appearing in refereed journals
Lawless, C., Semenov, M. A. and Jamieson, P. D. 2008. Quantifying the effect of uncertainty in soil moisture characteristics on plant growth using a crop simulation model. Field Crops Research. 106, pp. 138-147. https://doi.org/10.1016/j.fcr.2007.11.004

Reconciling alternative models of phenological development in winter wheat

A - Papers appearing in refereed journals
Jamieson, P. D., Brooking, I. R., Semenov, M. A., Mcmaster, G. S., White, J. W. and Porter, J. R. 2007. Reconciling alternative models of phenological development in winter wheat. Field Crops Research. 103, pp. 36-41. https://doi.org/10.1016/j.fcr.2007.04.009

Simplifying SIRIUS: development of a metamodel for wheat yield prediction

C2 - Non-edited contributions to conferences
Semenov, M. A., Brooks, R. J. and Jamieson, P. D. 2001. Simplifying SIRIUS: development of a metamodel for wheat yield prediction. Abstracts 2nd International Symposium on Modelling Cropping Systems, Florence, 16-18 July 2001.

Simplifying Sirius: sensitivity analysis and development of a meta-model for wheat yield prediction

A - Papers appearing in refereed journals
Brooks, R. J., Semenov, M. A. and Jamieson, P. D. 2001. Simplifying Sirius: sensitivity analysis and development of a meta-model for wheat yield prediction. European Journal of Agronomy. 14 (1), pp. 43-60. https://doi.org/10.1016/S1161-0301(00)00089-7

Simulation of extreme weather events by a stochastic weather generator

A - Papers appearing in refereed journals
Semenov, M. A. 2008. Simulation of extreme weather events by a stochastic weather generator. Climate Research. 35 (3), pp. 203-212. https://doi.org/10.3354/cr00731

Slugs and nematodes in a fighting arena - individual based models of parasitism

C1 - Edited contributions to conferences/learned societies
Choi, Y. H., Bohan, D. A., Semenov, M. A., Potting, R. P. J. and Glen, D. M. 2003. Slugs and nematodes in a fighting arena - individual based models of parasitism. Slugs and Snails: Agricultural, Veterinary and Environmental Perspectives. British Crop Protection Council Symposium Proceedings No. 80 . British Crop Protection Council (BCPC). pp. 177-182