Research in statistics relevant to biological processes

Project (past)

Project dates01 Apr 1999 to end of 31 Mar 2008
Researchers
Principal InvestigatorRobin Thompson
Project number4212
DepartmentBiomathematics and Bioinformatics (BAB)
Research fish codeBBS/E/C/00004212
Grant IDBBS/E/C/00004212

Outputs

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The design and analysis of long-term rotation experiments

A - Papers appearing in refereed journals
Payne, R. W. 2013. The design and analysis of long-term rotation experiments. Agronomy Journal. 105 (2), pp. 772-785. https://doi.org/10.2134/agronj2012.0411

A bivariate mixed model approach for the analysis of plant survival data

A - Papers appearing in refereed journals
Ganesalingam, A., Smith, A. B., Beeck, C. P., Cowling, W. A., Thompson, R. and Cullis, B. R. 2013. A bivariate mixed model approach for the analysis of plant survival data. Euphytica. 190 (3), pp. 371-383. https://doi.org/10.1007/s10681-012-0791-0

Employing a Monte Carlo algorithm in expectation maximization restricted maximum likelihood estimation of the linear mixed model

A - Papers appearing in refereed journals
Matilainen, K., Mantysaari, E. A., Lidauer, M. H., Stranden, L. and Thompson, R. 2012. Employing a Monte Carlo algorithm in expectation maximization restricted maximum likelihood estimation of the linear mixed model. Journal of Animal Breeding and Genetics. 129 (6), pp. 457-468. https://doi.org/10.1111/j.1439-0388.2012.01000.x

To bite or not to bite! A questionnaire-based survey assessing why some people are bitten more than others by midges

A - Papers appearing in refereed journals
Logan, J. G., Cook, J. I., Stanczyk, N. M., Weeks, E. N. I., Welham, S. J. and Mordue (Luntz), A. J. 2010. To bite or not to bite! A questionnaire-based survey assessing why some people are bitten more than others by midges. Bmc Public Health. 10, p. 275 (8pp). https://doi.org/10.1186/1471-2458-10-275

A note on bimodality in the log-likelihood function for penalized spline mixed models

A - Papers appearing in refereed journals
Welham, S. J. and Thompson, R. 2009. A note on bimodality in the log-likelihood function for penalized spline mixed models. Computational Statistics & Data Analysis. 53 (4), pp. 920-931. https://doi.org/10.1016/j.csda.2008.10.031

The importance of temperature and moisture to the egg-laying behaviour of a pest slug, Deroceras reticulatum

A - Papers appearing in refereed journals
Willis, J. C., Bohan, D. A., Powers, S. J., Choi, Y. H., Park, J. and Gussin, E. 2008. The importance of temperature and moisture to the egg-laying behaviour of a pest slug, Deroceras reticulatum. Annals of Applied Biology - AAB. 153 (1), pp. 105-115. https://doi.org/10.1111/j.1744-7348.2008.00242.x

The analysis of QTL by simultaneous use of the full linkage map

A - Papers appearing in refereed journals
Verbyla, A. P., Cullis, B. R. and Thompson, R. 2008. The analysis of QTL by simultaneous use of the full linkage map. Theoretical and Applied Genetics. 116 (December), pp. 95-111. https://doi.org/10.1007/s00122-007-0650-x

Effect of variety and environmental factors on gluten proteins: an analytical, spectroscopic and rheological study

A - Papers appearing in refereed journals
Georget, D. M. R., Toscano-Underwood, C., Powers, S. J., Shewry, P. R. and Belton, P. S. 2008. Effect of variety and environmental factors on gluten proteins: an analytical, spectroscopic and rheological study. Journal of Agricultural and Food Chemistry - JAFC. 56, pp. 1172-1179. https://doi.org/10.1021/jf072443t

Estimation of quantitative genetic parameters

A - Papers appearing in refereed journals
Thompson, R. 2008. Estimation of quantitative genetic parameters. Proceedings of the Royal Society B: Biological Sciences. 275, pp. 679-686. https://doi.org/10.1098/rspb.2007.1417

Analysis of litter size and average litter weight in pigs using a recursive model

A - Papers appearing in refereed journals
Varona, L., Sorensen, D. and Thompson, R. 2007. Analysis of litter size and average litter weight in pigs using a recursive model. Genetics. 177 (3), pp. 1791-1799. https://doi.org/10.1534/genetics.107.077818

Behavioural side-effects of insecticide resistance in aphids increase their vulnerability to parasitoid attack

A - Papers appearing in refereed journals
Foster, S. P., Tomiczek, M., Thompson, R., Denholm, I., Poppy, G. M., Kraaijeveld, A. R. and Powell, W. 2007. Behavioural side-effects of insecticide resistance in aphids increase their vulnerability to parasitoid attack. Animal Behaviour. 74 (3), pp. 621-632. https://doi.org/10.1016/j.anbehav.2006.12.018

Quasi-Monte Carlo estimation in generalized linear mixed models

A - Papers appearing in refereed journals
Pan, J. and Thompson, R. 2007. Quasi-Monte Carlo estimation in generalized linear mixed models. Computational Statistics & Data Analysis. 51 (12), pp. 5765-5775. https://doi.org/10.1016/j.csda.2006.10.003

Environmental change and the phenology of European aphids

A - Papers appearing in refereed journals
Harrington, R., Clark, S. J., Welham, S. J., Verrier, P. J., Denholm, C. H., Hulle, M., Maurice, D., Rounsevell, M. D., Cocu, N. and European Union Examine Consortium 2007. Environmental change and the phenology of European aphids. Global Change Biology. 13 (8), pp. 1550-1564. https://doi.org/10.1111/j.1365-2486.2007.01394.x

A comparison of mixed model splines for curve fitting

A - Papers appearing in refereed journals
Welham, S. J., Cullis, B. R., Kenward, M. G. and Thompson, R. 2007. A comparison of mixed model splines for curve fitting. Australian & New Zealand Journal of Statistics. 49 (1), pp. 1-23. https://doi.org/10.1111/j.1467-842X.2006.00454.x

Analysis of variance, inference, multiple comparisons and sampling effects in soil research

A - Papers appearing in refereed journals
Webster, R. 2007. Analysis of variance, inference, multiple comparisons and sampling effects in soil research. European Journal of Soil Science. 58 (1), pp. 74-82. https://doi.org/10.1111/j.1365-2389.2006.00801.x

Genetic characterization and functional analysis of the GID1 gibberellin receptors in Arabidopsis

A - Papers appearing in refereed journals
Griffiths, J., Murase, K., Rieu, I., Zentella, R., Zhang, Z-L., Powers, S. J., Gong, F., Phillips, A. L., Hedden, P., Sun, T-P. and Thomas, S. G. 2006. Genetic characterization and functional analysis of the GID1 gibberellin receptors in Arabidopsis. The Plant Cell. 18 (12), pp. 3399-3414. https://doi.org/10.1105/tpc.106.047415

The Kalman filter for the pedologist's tool kit

A - Papers appearing in refereed journals
Webster, R. and Heuvelink, G. B. M. 2006. The Kalman filter for the pedologist's tool kit. European Journal of Soil Science. 57 (5), pp. 758-773. https://doi.org/10.1111/j.1365-2389.2005.00759.x

Issues concerning the design and analysis of comparative field experiments

A - Papers appearing in refereed journals
Welham, S. J. and Clark, S. J. 2006. Issues concerning the design and analysis of comparative field experiments. Outlooks on Pest Management. 17, pp. 175-180. https://doi.org/10.1564/17aug10

Estimating the spatial scales of regionalized variables by nested sampling, hierarchical analysis of variance and residual maximum likelihood

A - Papers appearing in refereed journals
Webster, R., Welham, S. J., Potts, J. M. and Oliver, M. A. 2006. Estimating the spatial scales of regionalized variables by nested sampling, hierarchical analysis of variance and residual maximum likelihood. Computers and Geosciences. 32, pp. 1320-1333. https://doi.org/10.1016/j.cageo.2005.12.002

The analysis of longitudinal data using mixed model L-splines

A - Papers appearing in refereed journals
Welham, S. J., Cullis, B. R., Kenward, M. G. and Thompson, R. 2006. The analysis of longitudinal data using mixed model L-splines. Biometrics. 62 (2), pp. 392-401. https://doi.org/10.1111/j.1541-0420.2005.00500.x

Major genetic changes in wheat with potential to affect disease tolerance

A - Papers appearing in refereed journals
Foulkes, M. J., Paveley, N. D., Worland, A., Welham, S. J., Thomas, J. and Snape, J. W. 2006. Major genetic changes in wheat with potential to affect disease tolerance. Phytopathology. 96, pp. 680-688. https://doi.org/10.1094/PHYTO-96-0680

Production of high-starch, low-glucose potatoes through over-expression of the metabolic regulator SnRK1

A - Papers appearing in refereed journals
Mckibbin, R. S., Muttucumaru, N., Paul, M. J., Powers, S. J., Burrell, M. M., Coates, S., Purcell, P. C., Tiessen, A., Geigenberger, P. and Halford, N. G. 2006. Production of high-starch, low-glucose potatoes through over-expression of the metabolic regulator SnRK1. Plant Biotechnology Journal. 4 (4), pp. 409-418. https://doi.org/10.1111/j.1467-7652.2006.00190.x

Visual and PCR assessment of light leaf spot (Pyrenopeziza brassicae) on winter oilseed rape (Brassica napus) cultivars

A - Papers appearing in refereed journals
Karolewski, Z., Fitt, B. D. L., Latunde-Dada, A. O., Foster, S. J., Todd, A. D., Downes, K. and Evans, N. 2006. Visual and PCR assessment of light leaf spot (Pyrenopeziza brassicae) on winter oilseed rape (Brassica napus) cultivars. Plant Pathology. 55 (3), pp. 387-400. https://doi.org/10.1111/j.1365-3059.2006.01383.x

Simulated beetle defoliation on willow genotypes in mixture and monotype plantations

A - Papers appearing in refereed journals
Powers, S. J., Peacock, L., Yap, M-L. and Brain, P. 2006. Simulated beetle defoliation on willow genotypes in mixture and monotype plantations. Annals of Applied Biology - AAB. 148 (1), pp. 27-38. https://doi.org/10.1111/j.1744-7348.2005.00035.x

Estimation of genetic parameters

B - Book chapters etc edited externally
Thompson, R. 2005. Estimation of genetic parameters. in: Mrode, R. A. (ed.) Linear models for the prediction of animal breeding values, 2nd ed. CABI International, Wallingford, Oxon (CABI). pp. 235-245

The analysis of crop cultivar breeding and evaluation trials: an overview of current mixed model approaches

A - Papers appearing in refereed journals
Smith, A. B., Cullis, B. R. and Thompson, R. 2005. The analysis of crop cultivar breeding and evaluation trials: an overview of current mixed model approaches. The Journal of Agricultural Science. 143 (6), pp. 449-462. https://doi.org/10.1017/S0021859605005587

Estimation of quantitative genetic parameters

A - Papers appearing in refereed journals
Thompson, R., Brotherstone, S. and White, I. M. S. 2005. Estimation of quantitative genetic parameters. Philosophical Transactions of the Royal Society B-Biological Sciences. 360 (1459), pp. 1469-1477. https://doi.org/10.1098/rstb.2005.1676

Development of a maternal breeding goal and tools to select for this goal in UK beef production

A - Papers appearing in refereed journals
Roughsedge, T., Amer, P. R., Thompson, R. and Simm, G. 2005. Development of a maternal breeding goal and tools to select for this goal in UK beef production. Animal Science. 81 (2), pp. 221-232. https://doi.org/10.1079/ASC50230221

Statistical modelling of weed seedbanks to consider the effect of crop rotations

C2 - Non-edited contributions to conferences
Powers, S. J. and Bohan, D. A. 2005. Statistical modelling of weed seedbanks to consider the effect of crop rotations. Cambridge University Press (CUP).

Modelling the effect of soil moisture on germination and emergence of wheat and sugar beet with the minimum number of parameters

A - Papers appearing in refereed journals
Rinaldi, M., Di Paolo. E., Richter, G. M. and Payne, R. W. 2005. Modelling the effect of soil moisture on germination and emergence of wheat and sugar beet with the minimum number of parameters. Annals of Applied Biology - AAB. 147 (1), pp. 69-80. https://doi.org/10.1111/j.1744-7348.2005.00018.x

Predicting the environmental thresholds for cambial and secondary vascular tissue development in stems of hybrid aspen

A - Papers appearing in refereed journals
Barlow, P. W. and Powers, S. J. 2005. Predicting the environmental thresholds for cambial and secondary vascular tissue development in stems of hybrid aspen. Annals Of Forest Science. 62, pp. 565-573.

Reduced response of insecticide-resistant aphids and attraction of parasitoids to aphid alarm pheromone; a potential fitness trade-off

A - Papers appearing in refereed journals
Foster, S. P., Denholm, I., Thompson, R., Poppy, G. M. and Powell, W. 2005. Reduced response of insecticide-resistant aphids and attraction of parasitoids to aphid alarm pheromone; a potential fitness trade-off. Bulletin of Entomological Research. 95 (1), pp. 37-46. https://doi.org/10.1079/BER2004336

Statistics in soil science

G - Articles in popular magazines and other technical publications
Webster, R. 2005. Statistics in soil science.

Spatial variation, soil properties

G - Articles in popular magazines and other technical publications
Webster, R. 2005. Spatial variation, soil properties.

Joint modelling of competition and spatial variability in forest field trials

C1 - Edited contributions to conferences/learned societies
Resende, M. D. V., Stringer, J., Cullis, B. and Thompson, R. 2004. Joint modelling of competition and spatial variability in forest field trials. Borralho, N. (ed.) Eucalyptus in a Changing World. Proceedings of the IUFRO Conference, Aveiro, 11-15 October 2004 .

Analysing soil variation in two dimensions with the discrete wavelet transform

A - Papers appearing in refereed journals
Lark, R. M. and Webster, R. 2004. Analysing soil variation in two dimensions with the discrete wavelet transform. European Journal of Soil Science. 55 (4), pp. 777-797. https://doi.org/10.1111/j.1365-2389.2004.00630.x

Prediction in linear mixed models

A - Papers appearing in refereed journals
Welham, S. J., Cullis, B. R., Gogel, B., Gilmour, A. and Thompson, R. 2004. Prediction in linear mixed models. Australian & New Zealand Journal of Statistics. 46 (3), pp. 325-347. https://doi.org/10.1111/j.1467-842X.2004.00334.x

Tolerance of septoria leaf blotch in winter wheat

A - Papers appearing in refereed journals
Parker, S. R., Welham, S. J., Paveley, N. D., Foulkes, J. and Scott, R. K. 2004. Tolerance of septoria leaf blotch in winter wheat. Plant Pathology. 53 (1), pp. 1-10. https://doi.org/10.1111/j.1365-3059.2004.00951.x

An efficient computing strategy for prediction in mixed linear models

A - Papers appearing in refereed journals
Gilmour, A., Cullis, B. R., Welham, S. J., Gogel, B. and Thompson, R. 2004. An efficient computing strategy for prediction in mixed linear models. Computational Statistics & Data Analysis. 44 (4), pp. 571-586. https://doi.org/10.1016/S0167-9473(02)00258-X

Position of inoculum in the canopy affects the risk of septoria tritici blotch epidemics in winter wheat

A - Papers appearing in refereed journals
Lovell, D. J., Parker, S. R., Hunter, T., Welham, S. J. and Nichols, A. R. 2004. Position of inoculum in the canopy affects the risk of septoria tritici blotch epidemics in winter wheat. Plant Pathology. 53 (1), pp. 11-21. https://doi.org/10.1046/j.1365-3059.2003.00939.x