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.
| Authors | Thompson, R. and Mantysaari, E. |
|---|---|
| Abstract | Accurate prediction of breeding values is of great importance for animal improvement programmes. The prediction of breeding values requires knowledge of the magnitude of the variances and covariances of random effects. This paper gives a short review of methods of estimation of genetic variance parameters, contrasting analytical estimates with iterative and sampling based methods. |
| Keywords | Variance component estimation; Residual maximum likelihood; Derivative free methods |
| Year of Publication | 2004 |
| Journal | Journal of the Indian Society of Agricultural Statistics |
| Journal citation | 57 (Special Volume), pp. 15-25 |
| Open access | Published as green open access |
| Funder project or code | 513 |
| Application of non-linear mathematics and stochastic modelling to biological systems | |
| Accepted author manuscript | |
| Output status | Published |
| Copyright license | Publisher copyright |
| ISSN | 0019-6363 |
| Publisher | Indian Society of Agricultural Statistics |
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A computationally efficient algorithm to leverage average information REML for (co)variance component estimation in the genomic era
A - Papers appearing in refereed journals
Stranden, I., Mantysaari, E. A., Lidauer, M. H., Thompson, R. and Gao, H. 2024. A computationally efficient algorithm to leverage average information REML for (co)variance component estimation in the genomic era. Genetics Selection Evolution. 56, p. 73. https://doi.org/10.1186/s12711-024-00939-x
Journal of animal breeding and genetics
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Thompson, R. 2019. Journal of animal breeding and genetics . 136 (4), pp. 229-309.
Desert island papers-a life in variance parameter and quantitative genetic parameter estimation reviewed using sixteen papers
A - Papers appearing in refereed journals
Thompson, R. 2019. Desert island papers-a life in variance parameter and quantitative genetic parameter estimation reviewed using sixteen papers. Journal of Animal Breeding and Genetics. 136 (4), pp. 230-242. https://doi.org/10.1111/jbg.12400
Genomic Selection in Multi-environment Crop Trials
A - Papers appearing in refereed journals
Oakey, H., Cullis, B. R., Thompson, R., Comadran, J., Halpin, C. and Waugh, R. 2016. Genomic Selection in Multi-environment Crop Trials. G3: Genes, Genomes, Genetics. 6 (5), pp. 1313-1326. https://doi.org/10.1534/g3.116.027524
Employing a Monte Carlo algorithm in Newton-type methods for restricted maximum likelihood estimation of genetic parameters
A - Papers appearing in refereed journals
Matilainen, K., Mantysaari, E. A., Lidauer, M. H., Stranden, I. and Thompson, R. 2013. Employing a Monte Carlo algorithm in Newton-type methods for restricted maximum likelihood estimation of genetic parameters. PLOS ONE. 8 (12), p. e80821. https://doi.org/10.1371/journal.pone.0080821
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
Estimating variance components and predicting breeding values for eventing disciplines and grades in sport horses
A - Papers appearing in refereed journals
Stewart, I. D., White, I. M. S., Gilmour, A. R., Thompson, R., Woolliams, J. A. and Brotherstone, S. 2012. Estimating variance components and predicting breeding values for eventing disciplines and grades in sport horses. Animal. 6 (9), pp. 1377-1388. https://doi.org/10.1017/S1751731112000596
Fitness trade-off in peach-potato aphids (Myzus persicae) between insecticide resistance and vulnerability to parasitoid attack at several spatial scales
A - Papers appearing in refereed journals
Foster, S. P., Denholm, I., Poppy, G. M., Thompson, R. and Powell, W. 2011. Fitness trade-off in peach-potato aphids (Myzus persicae) between insecticide resistance and vulnerability to parasitoid attack at several spatial scales. Bulletin of Entomological Research. 101 (6), pp. 659-666. https://doi.org/10.1017/S0007485310000623
Genomic and pedigree-based genetic parameters for scarcely recorded traits when some animals are genotyped
A - Papers appearing in refereed journals
Veerkamp, R. F., Mulder, H. A., Thompson, R. and Calus, M. P. L. 2011. Genomic and pedigree-based genetic parameters for scarcely recorded traits when some animals are genotyped. Journal of Dairy Science. 94 (8), pp. 4189-4197. https://doi.org/10.3168/jds.2011-4223
Joint modeling of spatial variability and within-row interplot competition to increase the efficiency of plant improvement
A - Papers appearing in refereed journals
Stringer, J. K., Cullis, B. R. and Thompson, R. 2011. Joint modeling of spatial variability and within-row interplot competition to increase the efficiency of plant improvement. Journal of Agricultural Biological and Environmental Statistics. 16 (2), pp. 269-281. https://doi.org/10.1007/s13253-010-0051-5
The design and analysis of variety trials using mixtures of composite and individual plot samples
A - Papers appearing in refereed journals
Smith, A. B., Thompson, R., Butler, D. G. and Cullis, B. R. 2011. The design and analysis of variety trials using mixtures of composite and individual plot samples. Journal of the Royal Statistical Society, Series C (Applied Statistics). 60 (3), pp. 437-455. https://doi.org/10.1111/j.1467-9876.2010.00755.x
A comparison of analysis methods for late-stage variety evaluation trials
A - Papers appearing in refereed journals
Welham, S. J., Gogel, B. J., Smith, A. B., Thompson, R. and Cullis, B. R. 2010. A comparison of analysis methods for late-stage variety evaluation trials. Australian & New Zealand Journal of Statistics. 52 (2), pp. 125-149. https://doi.org/10.1111/j.1467-842X.2010.00570.x
A variance shift model for detection of outliers in the linear mixed model
A - Papers appearing in refereed journals
Gumedze, F. N., Welham, S. J., Gogel, B. J. and Thompson, R. 2010. A variance shift model for detection of outliers in the linear mixed model. Computational Statistics & Data Analysis. 54 (9), pp. 2128-2144. https://doi.org/10.1016/j.csda.2010.03.019
ASREML user guide release 3.0
D1 - Technical reports: non-confidential
Gilmour, A. R., Gogel, B. J., Cullis, B. R. and Thompson, R. 2009. ASREML user guide release 3.0. VSN International, Hemel Hempstead.
Latent mixed models
C2 - Non-edited contributions to conferences
Thompson, R. 2009. Latent mixed models. Proceedings 18th Conference of the Association for the Advancement of Animal Breeding and Genetics: Matching Genetics and the Environment - a New Look at an Old Topic, Barossa Valley, 28 September - 1 October 2009 . Association for the Advancement of Animal Breeding Genetics. pp. 398-405
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 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
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
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
Multivariate spatial statistical analysis of longitudinal data in perennial crops
A - Papers appearing in refereed journals
De Resende, M. D. V., Thompson, R. and Welham, S. J. 2006. Multivariate spatial statistical analysis of longitudinal data in perennial crops. Revista de Matemática e Estatística, São Paulo,. 24 (1), pp. 147-169.
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
Development of ‘RL Plus’: winter wheat variety performance in relation to site characteristics (HGCA Project Report No. 365)
D1 - Technical reports: non-confidential
Welham, S. J., Thompson, R. and Sylvester-Bradley, R. 2005. Development of ‘RL Plus’: winter wheat variety performance in relation to site characteristics (HGCA Project Report No. 365). Stoneleigh Home Grown Cereals Authority (HGCA).
Joint modelling of competition and spatial variability in forest field trials
A - Papers appearing in refereed journals
De Resende, M. D. V., Stringer, J., Cullis, B. R. and Thompson, R. 2005. Joint modelling of competition and spatial variability in forest field trials. Revista de Matemática e Estatística, São Paulo,. 23 (2), pp. 7-22.
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
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
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.
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
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
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 .
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 .
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
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
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
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
Using a correlated probit model approximation to estimate the variance for binary matched pairs
A - Papers appearing in refereed journals
Waddington, D. and Thompson, R. 2004. Using a correlated probit model approximation to estimate the variance for binary matched pairs. Statistics and Computing. 14 (2), pp. 83-90. https://doi.org/10.1023/B:STCO.0000021406.25797.98
Modelling and estimation for the genetic analysis of longitudinal data
C1 - Edited contributions to conferences/learned societies
Thompson, R. and Jaffrezic, F. 2003. Modelling and estimation for the genetic analysis of longitudinal data. International Statistical Institute (ISI).
Multiplicative mixed models for the analysis of sensory evaluation data
A - Papers appearing in refereed journals
Smith, A., Cullis, B. R., Brockoff, P. and Thompson, R. 2003. Multiplicative mixed models for the analysis of sensory evaluation data. Food Quality and Preference. 14 (5-6), pp. 387-395. https://doi.org/10.1016/S0950-3293(03)00014-4
Multivariate spatial statistical analysis in perennial crops
C2 - Non-edited contributions to conferences
Vilela De Resende, M. D., Thompson, R., Welham, S. J. and Baierl, A. 2003. Multivariate spatial statistical analysis in perennial crops. Abstracts International Biometric Society British Region Conference, Reading, 16-18 September 2003 . pp. 70
Structured antedependence models for genetic analysis of repeated measures on multiple quantitative traits
A - Papers appearing in refereed journals
Jaffrezic, F., Thompson, R. and Hill, W. G. 2003. Structured antedependence models for genetic analysis of repeated measures on multiple quantitative traits. Genetics Research. 82 (1), pp. 55-65. https://doi.org/10.1017/S0016672303006281
A sparse implementation of the average information algorithm for factor analytic and reduced rank variance models
A - Papers appearing in refereed journals
Thompson, R., Cullis, B. R., Smith, A. and Gilmour, A. 2003. A sparse implementation of the average information algorithm for factor analytic and reduced rank variance models. Australian & New Zealand Journal of Statistics. 45 (4), pp. 445-459. https://doi.org/10.1111/1467-842X.00297
The analysis of quantitative trait loci in multi-environment trials using a multiplicative mixed model
A - Papers appearing in refereed journals
Verbyla, A. P., Eckermann, P. J., Thompson, R. and Cullis, B. R. 2003. The analysis of quantitative trait loci in multi-environment trials using a multiplicative mixed model. Australian Journal of Agricultural Research. 54 (12), pp. 1395-1408. https://doi.org/10.1071/AR02239
Use of the score test as a goodness-of-fit measure of the covariance structure in genetic analysis of longitudinal data
A - Papers appearing in refereed journals
Jaffrezic, F., White, I. M. S. and Thompson, R. 2003. Use of the score test as a goodness-of-fit measure of the covariance structure in genetic analysis of longitudinal data. Genetics Selection Evolution. 35, pp. 185-198. https://doi.org/10.1051/gse:2003003
Gauss-Hermite quadrature approximation for estimation in generalised linear mixed models
A - Papers appearing in refereed journals
Pan, J. and Thompson, R. 2003. Gauss-Hermite quadrature approximation for estimation in generalised linear mixed models. Computational Statistics. 18 (1), pp. 57-78. https://doi.org/10.1007/s001800300132
Association of MACE-based insecticide resistance in Myzus persicae with reproductive rate, response to alarm pheromone and vulnerability to attack by Aphidius colemani
A - Papers appearing in refereed journals
Foster, S. P., Kift, N. B., Baverstock, J., Sime, S., Reynolds, K., Jones, J. E., Thompson, R. and Tatchell, G. M. 2003. Association of MACE-based insecticide resistance in Myzus persicae with reproductive rate, response to alarm pheromone and vulnerability to attack by Aphidius colemani. Pest Management Science. 59 (11), pp. 1169-1178. https://doi.org/10.1002/ps.751
Genetic parameters and evaluations from single- and multiple- trait analysis of dairy cow fertility and milk production
A - Papers appearing in refereed journals
Kadarmideen, H. N., Thompson, R., Coffey, M. P. and Kossaibati, M. A. 2003. Genetic parameters and evaluations from single- and multiple- trait analysis of dairy cow fertility and milk production. Livestock Production Science. 81 (2-3), pp. 183-195. https://doi.org/10.1016/S0301-6226(02)00274-9
Variation in response to neonicotinoid insecticides in peach-potato aphids, Myzus persicae (Hemiptera: Aphididae)
A - Papers appearing in refereed journals
Foster, S. P., Denholm, I. and Thompson, R. 2003. Variation in response to neonicotinoid insecticides in peach-potato aphids, Myzus persicae (Hemiptera: Aphididae). Pest Management Science. 59 (2), pp. 166-173. https://doi.org/10.1002/ps.570
REML analysis of mixed models
B - Book chapters etc edited externally
Thompson, R. and Welham, S. J. 2002. REML analysis of mixed models. in: Payne, R. W. (ed.) Guide to GenStat release 6.1. Part 2. Statistics Hemel Hempstead VSN International. pp. 461-560
GenStat release 6.1 reference manual. Part 2. Directives
E - Books edited/written by staff member, alone/with others
Payne, R. W., Baird, D. B., Cherry, M., Gilmour, A. R., Harding, S. A., Lane, P. W., Morgan, G. W., Murray, D. A., Soutar, D. M., Thompson, R., Todd, A. D., Tunnicliffe Wilson, G., Webster, R. and Welham, S. J. 2002. GenStat release 6.1 reference manual. Part 2. Directives. Hemel Hempstead VSN International.
GenStat release 6.1 reference manual. Part 1. Summary
E - Books edited/written by staff member, alone/with others
Payne, R. W., Baird, D. B., Cherry, M., Gilmour, A. R., Harding, S. A., Lane, P. W., Morgan, G. W., Murray, D. A., Soutar, D. M., Thompson, R., Todd, A. D., Tunnicliffe Wilson, G., Webster, R. and Welham, S. J. 2002. GenStat release 6.1 reference manual. Part 1. Summary. Hemel Hempstead VSN International.
ASREML user guide release 1.0
D1 - Technical reports: non-confidential
Gilmour, A. R., Gogel, B. J., Cullis, B. R., Welham, S. J. and Thompson, R. 2002. ASREML user guide release 1.0. VSN International, Hemel Hempstead.
Contrasting models for lactation curve analysis
A - Papers appearing in refereed journals
Jaffrezic, F., White, I. M. S., Thompson, R. and Visscher, P. M. 2002. Contrasting models for lactation curve analysis. Journal of Dairy Science. 85 (4), pp. 968-975. https://doi.org/10.3168/jds.S0022-0302(02)74156-8
Heritability, reliability of genetic evaluations and response to selection in proportional hazard models
A - Papers appearing in refereed journals
Yazdi, M. H., Visscher, P. M., Ducrocq, V. and Thompson, R. 2002. Heritability, reliability of genetic evaluations and response to selection in proportional hazard models. Journal of Dairy Science. 85 (6), pp. 1563-1577. https://doi.org/10.3168/jds.S0022-0302(02)74226-4
Development and mapping of SSR markers for maize
A - Papers appearing in refereed journals
Sharopova, N., Mcmullen, M. D., Schultz, L., Schroeder, S., Sanchez-Villeda, H., Gardiner, J., Bergstrom, D., Houchins, K., Melia-Hancock, S., Musket, T., Duru, N., Polacco, M., Edwards, K. J., Ruff, T., Register, J. C., Brouwer, C., Thompson, R., Velasco, R., Chin, E., Lee, M. R. F., Woodman-Clikeman, W., Long, M. J., Liscum, E., Cone, K., Davis, G. and Coe, E. H. Jr 2002. Development and mapping of SSR markers for maize. Plant Molecular Biology. 48 (5-6), pp. 463-481.
Aplicacion de la estadistica
C2 - Non-edited contributions to conferences
Thompson, R. 2002. Aplicacion de la estadistica. Solemne acto academico de investidura como Doctor Honoris Causa del Excmo. Sr. D. Daniel Gianola y del Excmo. Sr. D. Robin Thompson, Universidad Politecnica de Valencia, 8 November 2002 .
A review of genetic parameter estimation
C1 - Edited contributions to conferences/learned societies
Thompson, R. 2002. A review of genetic parameter estimation. Proceedings 7th World Congress on Genetics Applied to Livestock Production, Montpellier, 19-23 August 2002 . pp. 17-01
ASREML estimates variance matrices from multivariate data using the animal model
C1 - Edited contributions to conferences/learned societies
Gilmour, A. R., Thompson, R., Cullis, B. R. and Welham, S. J. 2002. ASREML estimates variance matrices from multivariate data using the animal model. Proceedings 7th World Congress on Genetics Applied to Livestock Production, Montpellier, 19-23 August 2002 . pp. 28-05
Statistical models for the genetic analysis of longitudinal data
C1 - Edited contributions to conferences/learned societies
Jaffrezic, F., White, I. M. S., Thompson, R., Visscher, P. M. and Hill, W. G. 2002. Statistical models for the genetic analysis of longitudinal data. Proceedings 7th World Congress on Genetics Applied to Livestock Production, Montpellier, 19-23 August 2002 . pp. 16-08
Foliar insect pest management on cowpea (Vigna unguiculata Walpers) in simulated varietal mixtures II. Pest resistance management implications
A - Papers appearing in refereed journals
Ward, A., Morse, S., Denholm, I., Thompson, R. and Mcnamara, N. 2002. Foliar insect pest management on cowpea (Vigna unguiculata Walpers) in simulated varietal mixtures II. Pest resistance management implications. Field Crops Research. 79 (1), pp. 67-80. https://doi.org/10.1016/S0378-4290(02)00137-5
Exploring variety - environment data using random effects AMMI models with adjustments for spatial field trend: Part 2. Applications
B - Book chapters etc edited externally
Smith, A., Cullis, B. R., Luckett, D., Hollamby, G. and Thompson, R. 2002. Exploring variety - environment data using random effects AMMI models with adjustments for spatial field trend: Part 2. Applications. in: Kang, M. S. (ed.) Quantitative genetics, genomics and plant breeding Wallingford, Oxon CAB International (CABI). pp. 337-351
Exploring variety - environment data using random effects AMMI models with adjustments for spatial field trend: Part 1. Theory
B - Book chapters etc edited externally
Smith, A., Cullis, B. R. and Thompson, R. 2002. Exploring variety - environment data using random effects AMMI models with adjustments for spatial field trend: Part 1. Theory. in: Kang, M. S. (ed.) Quantitative genetics, genomics and plant breeding Wallingford, Oxon CAB International (CABI). pp. 323-335
Bioassay and field-simulator studies of the efficacy of pymetrozine against peach-potato aphids, Myzus persicae (Hemiptera: Aphididae), possessing different mechanisms of insecticide resistance
A - Papers appearing in refereed journals
Foster, S. P., Denholm, I. and Thompson, R. 2002. Bioassay and field-simulator studies of the efficacy of pymetrozine against peach-potato aphids, Myzus persicae (Hemiptera: Aphididae), possessing different mechanisms of insecticide resistance. Pest Management Science. 58 (8), pp. 805-810. https://doi.org/10.1002/ps.529
On the mapping of quantitative trait loci at marker and non-marker locations
A - Papers appearing in refereed journals
Walling, G. A., Haley, C. S., Perez-Enciso, M., Thompson, R. and Visscher, P. M. 2002. On the mapping of quantitative trait loci at marker and non-marker locations. Genetics Research. 79 (1), pp. 97-106. https://doi.org/10.1017/S0016672301005420
Synthesis of direct and maternal genetic compounds of economically important traits from beef breed-cross evaluations
A - Papers appearing in refereed journals
Roughsedge, T., Thompson, R., Villanueva, B. and Simm, G. 2001. Synthesis of direct and maternal genetic compounds of economically important traits from beef breed-cross evaluations. Journal of Animal Science. 79 (9), pp. 2307-2319. https://doi.org/10.2527/2001.7992307x
Analyzing variety by environment data using multiplicative mixed models and adjustments for spatial field trend
A - Papers appearing in refereed journals
Smith, A., Cullis, B. R. and Thompson, R. 2001. Analyzing variety by environment data using multiplicative mixed models and adjustments for spatial field trend. Biometrics. 57 (4), pp. 1138-1147. https://doi.org/10.1111/j.0006-341X.2001.01138.x
The analysis of quantitative traits in wheat mapping populations
A - Papers appearing in refereed journals
Eckermann, P. J., Verbyla, A. P., Cullis, B. R. and Thompson, R. 2001. The analysis of quantitative traits in wheat mapping populations. Australian Journal of Agricultural Research. 52 (12), pp. 1195-1206. https://doi.org/10.1071/AR01039
Statistical validation of genetic models
A - Papers appearing in refereed journals
Thompson, R. 2001. Statistical validation of genetic models. Livestock Production Science. 72 (1-2), pp. 129-134. https://doi.org/10.1016/S0301-6226(01)00273-1
Linear and threshold model genetic parameters for disease, fertility and milk production in dairy cattle
A - Papers appearing in refereed journals
Kadarmideen, H. N., Thompson, R. and Simm, G. 2000. Linear and threshold model genetic parameters for disease, fertility and milk production in dairy cattle. Animal Science. 71 (3), pp. 411-419. https://doi.org/10.1017/S1357729800055338
Generalized linear mixed models: an improved estimating procedure
C1 - Edited contributions to conferences/learned societies
Pan, J-X. and Thompson, R. 2000. Generalized linear mixed models: an improved estimating procedure. Bethlehem, J. G. and Vanderheijden, P. G. M. (ed.) COMPSTAT: Proceedings in Computational Statistics 2000 . Physica-Verlag, Heidelberg. pp. 373-378
Spectral analysis of spatial point patterns in incompletely observed regions
C1 - Edited contributions to conferences/learned societies
Alexander, C. J., Mugglestone, M. A., Taylor, P. C., Thompson, R. and Morgan, G. W. 2000. Spectral analysis of spatial point patterns in incompletely observed regions. Proceedings International Conference on Spatial Temporal Modelling and its Applications, Leeds, 7-9 July 1999 . Leeds University Press. pp. 113-116
Marker-assisted selection using ridge regression
A - Papers appearing in refereed journals
Whittaker, J. C., Thompson, R. and Denham, M. C. 2000. Marker-assisted selection using ridge regression. Genetics Research. 75 (2), pp. 249-252. https://doi.org/10.1017/S0016672399004462
A link function approach to model heterogeneity of residual variances over time in lactation curve analyses
A - Papers appearing in refereed journals
Jaffrezic, F., White, I. M. S., Thompson, R. and Hill, W. G. 2000. A link function approach to model heterogeneity of residual variances over time in lactation curve analyses. Journal of Dairy Science. 83 (5), pp. 1089-1093. https://doi.org/10.3168/jds.S0022-0302(00)74973-3
A comparison of two survival analysis methods with the number of lactations as a discrete time value
C1 - Edited contributions to conferences/learned societies
Yazdi, M. H., Thompson, R., Ducrocq, V. and Visscher, P. 1999. A comparison of two survival analysis methods with the number of lactations as a discrete time value. Proceedings international workshop on EU concerted action Genetic Improvement of Functional Traits in Cattle (GIFT). Interbull.
Genetic analysis of longevity data in the UK: present practice and considerations for the future
C1 - Edited contributions to conferences/learned societies
Visscher, P., Thompson, R., Yazdi, H., Hill, W. G. and Brotherstone, S. 1999. Genetic analysis of longevity data in the UK: present practice and considerations for the future. Proceedings of the Genetic Improvement of Functional Traits in cattle longevity, Interbull. Jouy-en-Jossas, France, 1999.
Prospects for statistical methods in dairy cattle breeding
C1 - Edited contributions to conferences/learned societies
Thompson, R. and Mantysaari, E. A. 1999. Prospects for statistical methods in dairy cattle breeding. Proceedings of the Genetic Improvement of Functional Traits in cattle longevity, Interbull. Jouy-en-Jossas, France, 1999.
Multi-trait covariance functions to estimate genetic correlations between milk yield, dry matter intake and live weight during lactation
C1 - Edited contributions to conferences/learned societies
Veerkamp, R. F. and Thompson, R. 1999. Multi-trait covariance functions to estimate genetic correlations between milk yield, dry matter intake and live weight during lactation. Metabolic stress in dairy cows. British Society of Animal Science Occasional Publication No. 24 . Cambridge University Press (CUP). https://doi.org/10.1017/S1463981500043168
A covariance function for feed intake, live weight and milk yield estimated using a random regression model
A - Papers appearing in refereed journals
Veerkamp, R. F. and Thompson, R. 1999. A covariance function for feed intake, live weight and milk yield estimated using a random regression model. Journal of Dairy Science. 82 (7), pp. 1565-1573. https://doi.org/10.3168/jds.S0022-0302(99)75384-1
Reduced alarm response by peach-potato aphids, Myzus persicae (Hemiptera: Aphididae), with knock-down resistance to insecticides (kdr ) may impose a fitness cost through increased vulnerability to natural enemies
A - Papers appearing in refereed journals
Foster, S. P., Woodcock, C. M., Williamson, M. S., Devonshire, A. L., Denholm, I. and Thompson, R. 1999. Reduced alarm response by peach-potato aphids, Myzus persicae (Hemiptera: Aphididae), with knock-down resistance to insecticides (kdr ) may impose a fitness cost through increased vulnerability to natural enemies. Bulletin of Entomological Research. 89 (2), pp. 133-138. https://doi.org/10.1017/S0007485399000218
Genetic and environmental smoothing of lactation curves with cubic splines
A - Papers appearing in refereed journals
White, I. M. S., Thompson, R. and Brotherstone, S. 1999. Genetic and environmental smoothing of lactation curves with cubic splines. Journal of Dairy Science. 82 (3), pp. 632-638. https://doi.org/10.3168/jds.S0022-0302(99)75277-X
Prospects for across-flock genetic evaluation in Australian Merino sheep
A - Papers appearing in refereed journals
Atkins, K. D., Gilmour, A. R., Thompson, R., Coelli, K. A. and Casey, A. E. 1998. Prospects for across-flock genetic evaluation in Australian Merino sheep. Wool Technology and Sheep Breeding. 46 (1), pp. 1-11.
Quasi-Monte Carlo EM algorithm for MLEs in generalized linear mixed models
C1 - Edited contributions to conferences/learned societies
Pan, J-X and Thompson, R. 1998. Quasi-Monte Carlo EM algorithm for MLEs in generalized linear mixed models. Payne, R. W. and Green, P. (ed.) Compstat 1998: Proceedings 13th Symposium in Computational Statistics, Bristol, 1998 . Physica-Verlag, Heidelberg. pp. 419-424 https://doi.org/10.1007/978-3-662-01131-7_58
Multi-trait covariance functions to model genetic variation in the dynamic relation between feed intake, live weight and milk yield during lactation
C2 - Non-edited contributions to conferences
Veerkamp, R. F. and Thompson, R. 1998. Multi-trait covariance functions to model genetic variation in the dynamic relation between feed intake, live weight and milk yield during lactation. Proceedings 49th Annual Meeting of the EAAP, Warsaw, 24-27 August 1998 .
Multi-trait covariance functions to model between animal variation in the dynamic relation between feed intake and milk yield during lactation
C2 - Non-edited contributions to conferences
Veerkamp, R. F., Thompson, R., Meuwissen, T. H. E. and Pool, M. H. 1998. Multi-trait covariance functions to model between animal variation in the dynamic relation between feed intake and milk yield during lactation. Proceedings 5th Zodiac Symposium on Regulation of Feed Intake, Wageningen, 22-24 April 1998 .
(Co)variance structures for linear models in the analysis of plant improvement data
C1 - Edited contributions to conferences/learned societies
Gilmour, A. R., Cullis, B. R., Frensham, A. B. and Thompson, R. 1998. (Co)variance structures for linear models in the analysis of plant improvement data. Payne, R. W. and Green, P. (ed.) Compstat 1998: Proceedings 13th Symposium in Computational Statistics, Bristol, 1998 . Physica-Verlag, Heidelberg. pp. 53-64 https://doi.org/10.1007/978-3-662-01131-7_5
Smoothing biological data with splines
C1 - Edited contributions to conferences/learned societies
White, I. M. S., Cullis, B. R., Gilmour, A. R. and Thompson, R. 1998. Smoothing biological data with splines. Invited Papers 19th International Biometric Conference, Cape Town, 14-18 December 1998 . pp. 57-66
Multiplicative models for interaction in spatial mixed model analyses for Multi-Environment Trial data
C1 - Edited contributions to conferences/learned societies
Smith, A. D., Cullis, B. R., Gilmour, A. R. and Thompson, R. 1998. Multiplicative models for interaction in spatial mixed model analyses for Multi-Environment Trial data. Invited Papers 19th International Biometric Conference, Cape Town, 14-18 December 1998 . pp. 91-101
Spatial analysis of multi-environment early generation variety trials
A - Papers appearing in refereed journals
Cullis, B. R., Gogel, B., Verbyla, A. and Thompson, R. 1998. Spatial analysis of multi-environment early generation variety trials. Biometrics. 54 (1), pp. 1-18. https://doi.org/10.2307/2533991
Estimation of genetic parameters using health, fertility and production data from a management recording system for dairy cattle
A - Papers appearing in refereed journals
Pryce, J. E., Esslemont, R. J., Thompson, R., Veerkamp, R. F., Kossaibati, M. A. and Simm, G. 1998. Estimation of genetic parameters using health, fertility and production data from a management recording system for dairy cattle. Animal Science. 66 (3), pp. 577-584. https://doi.org/10.1017/S1357729800009152
Use of prior information in forming selection indices
A - Papers appearing in refereed journals
Goddard, M. E. and Thompson, R. 1998. Use of prior information in forming selection indices. Journal of Animal Breeding and Genetics. 115 (5), pp. 327-340. https://doi.org/10.1111/j.1439-0388.1998.tb00354.x
Across-flock evaluation and optimisation of pedigree recording for merino sheep
C1 - Edited contributions to conferences/learned societies
Atkins, K. D., Gilmour, A. R., Thompson, R. and Coelli, K. A. 1998. Across-flock evaluation and optimisation of pedigree recording for merino sheep. Proceedings 6th World Congress on Genetics Applied to Livestock Production, Armidale, Australia, 11-16 January 1998 .
Reformulated generalised linear (mixed) model aids multiple trait genetic evaluation with polychotomous calving ease
C1 - Edited contributions to conferences/learned societies
Gilmour, A. R. and Thompson, R. 1998. Reformulated generalised linear (mixed) model aids multiple trait genetic evaluation with polychotomous calving ease. Proceedings 6th World Congress on Genetics Applied to Livestock Production, Armidale, Australia, 11-16 January 1998 .
Modelling variance parameters in ASREML for repeated measures data
C1 - Edited contributions to conferences/learned societies
Gilmour, A. R. and Thompson, R. 1998. Modelling variance parameters in ASREML for repeated measures data. Proceedings 6th World Congress on Genetics Applied to Livestock Production, Armidale, Australia, 11-16 January 1998 .
Genetic parameters for live animal conformation measures of British pedigree beef cattle
C1 - Edited contributions to conferences/learned societies
Crump, R. E., Simm, G. and Thompson, R. 1998. Genetic parameters for live animal conformation measures of British pedigree beef cattle. Proceedings 6th World Congress on Genetics Applied to Livestock Production, Armidale, Australia, 11-16 January 1998 .
Genstat 5 Release 4.1 reference manual supplement
E - Books edited/written by staff member, alone/with others
Payne, R. W., Lane, P. W., Baird, D. B., Gilmour, A. R., Harding, S. A., Morgan, G. W., Murray, D. A., Thompson, R., Todd, A. D., Tunnicliffe Wilson, G., Webster, R. and Welham, S. J. 1997. Genstat 5 Release 4.1 reference manual supplement. Numerical Algorithms Group, Oxford.
Genstat for Windows command language manual
E - Books edited/written by staff member, alone/with others
Payne, R. W., Lane, P. W., Baird, D. B., Gilmour, A. R., Harding, S. A., Morgan, G. W., Murray, D. A., Thompson, R., Todd, A. D., Tunnicliffe Wilson, G., Webster, R. and Welham, S. J. 1997. Genstat for Windows command language manual. Numerical Algorithms Group, Oxford.
Genetic aspects of common health disorders and measures of fertility in Holstein Friesian dairy cattle
A - Papers appearing in refereed journals
Pryce, J. E., Veerkamp, R. F., Thompson, R., Hill, W. G. and Simm, G. 1997. Genetic aspects of common health disorders and measures of fertility in Holstein Friesian dairy cattle. Animal Science. 65 (3), pp. 353-360. https://doi.org/10.1017/S1357729800008559
Genstat 5 Release 4.1 reference summary
E - Books edited/written by staff member, alone/with others
Payne, R. W., Lane, P. W., Baird, D. B., Gilmour, A. R., Harding, S. A., Morgan, G. W., Murray, D. A., Thompson, R., Todd, A. D., Tunnicliffe Wilson, G., Webster, R. and Welham, S. J. 1997. Genstat 5 Release 4.1 reference summary. Numerical Algorithms Group, Oxford.
A population genetics model of marker-assisted selection
A - Papers appearing in refereed journals
Luo, Z. W., Thompson, R. and Woolliams, J. A. 1997. A population genetics model of marker-assisted selection. Genetics. 146 (3), pp. 1173-1183.
A genetic analysis of egg quality traits and their maternal influence on offspring-parental regressions of juvenile body weight performance in broiler chickens
A - Papers appearing in refereed journals
Koerhuis, A. N. M., Mckay, J. C., Hill, W. G. and Thompson, R. 1997. A genetic analysis of egg quality traits and their maternal influence on offspring-parental regressions of juvenile body weight performance in broiler chickens. Livestock Production Science. 49 (3), pp. 203-215. https://doi.org/10.1016/S0301-6226(97)00002-X
Multivariate analysis of test day milk yields of British Holstein- Freisian heifers using Gibbs sampling
A - Papers appearing in refereed journals
Firat, M. Z., Theobald, C. M. and Thompson, R. 1997. Multivariate analysis of test day milk yields of British Holstein- Freisian heifers using Gibbs sampling. Acta Agriculturae Scandinavica Section A-Animal Science. 47 (4), pp. 221-229. https://doi.org/10.1080/09064709709362390
Univariate analysis of test day milk yields of British Holstein - Friesian heifers using Gibbs sampling
A - Papers appearing in refereed journals
Firat, M. Z., Theobald, C. M. and Thompson, R. 1997. Univariate analysis of test day milk yields of British Holstein - Friesian heifers using Gibbs sampling. Acta Agriculturae Scandinavica Section A-Animal Science. 47 (4), pp. 213-220. https://doi.org/10.1080/09064709709362389
Individual animal model estimates of genetic correlations between performance test and reproduction traits of Landrace pigs performance tested in a commercial nucleus herd
A - Papers appearing in refereed journals
Crump, R. E., Thompson, R., Haley, C. S. and Mercer, J. 1997. Individual animal model estimates of genetic correlations between performance test and reproduction traits of Landrace pigs performance tested in a commercial nucleus herd. Animal Science. 65 (2), pp. 291-298. https://doi.org/10.1017/S135772980001660X
Individual animal model estimates of genetic parameters for reproduction traits of Landrace pigs performance tested in a commercial nucleus herd
A - Papers appearing in refereed journals
Crump, R. E., Haley, C. S., Thompson, R. and Mercer, J. 1997. Individual animal model estimates of genetic parameters for reproduction traits of Landrace pigs performance tested in a commercial nucleus herd. Animal Science. 65 (2), pp. 285-290. https://doi.org/10.1017/S1357729800016593
Individual animal model estimates of genetic parameters for performance test traits of male and female Landrace pigs tested in a commercial nucleus herd
A - Papers appearing in refereed journals
Crump, R. E., Haley, C. S., Thompson, R. and Mercer, J. 1997. Individual animal model estimates of genetic parameters for performance test traits of male and female Landrace pigs tested in a commercial nucleus herd. Animal Science. 65 (2), pp. 275-283. https://doi.org/10.1017/S1357729800016581
Results of multivariate individual animal model genetic evaluations of British pedigree beef cattle
A - Papers appearing in refereed journals
Crump, R. E., Simm, G., Nicholson, D., Findlay, R. H., Bryan, J. G. E. and Thompson, R. 1997. Results of multivariate individual animal model genetic evaluations of British pedigree beef cattle. Animal Science. 65 (2), pp. 199-207. https://doi.org/10.1017/S1357729800016507
Assigning pedigree beef performance records to contemporary groups taking account of within herd calving patterns
A - Papers appearing in refereed journals
Crump, R. E., Wray, N. R., Thompson, R. and Simm, G. R. 1997. Assigning pedigree beef performance records to contemporary groups taking account of within herd calving patterns. Animal Science. 65 (2), pp. 193-198. https://doi.org/10.1017/S1357729800016490
Optimal weighting of information in marker-assisted selection
A - Papers appearing in refereed journals
Whittaker, J. C., Haley, C. S. and Thompson, R. 1997. Optimal weighting of information in marker-assisted selection. Genetics Research. 69 (2), pp. 137-144. https://doi.org/10.1017/S0016672397002711
Models to estimate maternal effects for juvenile body weight in broiler chickens
A - Papers appearing in refereed journals
Koerhuis, A. N. M. and Thompson, R. 1997. Models to estimate maternal effects for juvenile body weight in broiler chickens. Genetics Selection Evolution. 29, pp. 225-249. https://doi.org/10.1186/1297-9686-29-2-225
Likelihood ratio tests for fixed model terms using residual maximum likelihood
A - Papers appearing in refereed journals
Welham, S. J. and Thompson, R. 1997. Likelihood ratio tests for fixed model terms using residual maximum likelihood. Journal of the Royal Statistical Society, Series B (Statistical Methodology). 59 (3), pp. 701-714. https://doi.org/10.1111/1467-9868.00092
Gibbs sampling, adaptive rejection sampling and robustness to prior specification for a mixed linear model
A - Papers appearing in refereed journals
Theobald, C. M., Firat, M. Z. and Thompson, R. 1997. Gibbs sampling, adaptive rejection sampling and robustness to prior specification for a mixed linear model. Genetics Selection Evolution. 29 (1), pp. 57-72. https://doi.org/10.1186/1297-9686-29-1-57
Residual maximum likelihood estimation of (Co) variance components in multivariate mixed linear models using average information
A - Papers appearing in refereed journals
Jensen, J., Mantysaari, E. A., Madsen, P. and Thompson, R. 1997. Residual maximum likelihood estimation of (Co) variance components in multivariate mixed linear models using average information. Journal of the Indian Society of Agricultural Statistics. 49, pp. 215-236.
Comparative performance of British hill sheep breeds and crosses
A - Papers appearing in refereed journals
Al-Nakib, F. M. S., Bateman, N., Findlay, R. H., Smith, C. and Thompson, R. 1997. Comparative performance of British hill sheep breeds and crosses. The Journal of Agricultural Science. 128 (2), pp. 199-206. https://doi.org/10.1017/S0021859696003991
Genstat 5 Release 3.2 Command Language Manual
E - Books edited/written by staff member, alone/with others
Payne, R. W., Lane, P. W., Baird, D. B., Harding, S. A., Murray, D. A., Morgan, G. W., Todd, A. D., Thompson, R., Tunnicliffe Wilson, G., Webster, R. J., Welham, S. J. and White, Robin P. 1996. Genstat 5 Release 3.2 Command Language Manual. Numerical Algorithms Group, Oxford.
Limousin national sire and dam summary
D1 - Technical reports: non-confidential
Bridge, P., Brown, C. M., Guy, D. R., Weigleb, B., Crump, R. E., Simm, G., Findlay, R. M., Nicholson, P. and Thompson, R. 1996. Limousin national sire and dam summary. Signet, Milton Keynes.
Charolais national sire and dam summary
D1 - Technical reports: non-confidential
Bridge, P., Brown, C. M., Guy, D. R., Weigleb, B., Crump, R. E., Simm, G., Findlay, R. M., Nicholson, P. and Thompson, R. 1996. Charolais national sire and dam summary. Signet, Milton Keynes.
Blonde d'Aquitane national sire and dam summary
D1 - Technical reports: non-confidential
Bridge, P., Brown, C. M., Guy, D. R., Weigleb, B., Crump, R. E., Simm, G., Findlay, R. M., Nicholson, P. and Thompson, R. 1996. Blonde d'Aquitane national sire and dam summary. Signet, Milton Keynes.
Aberdeen Angus national sire and dam summary
D1 - Technical reports: non-confidential
Bridge, P., Brown, C. M., Guy, D. R., Weigleb, B., Crump, R. E., Simm, G., Findlay, R. M., Nicholson, P. and Thompson, R. 1996. Aberdeen Angus national sire and dam summary. Signet, Milton Keynes.
On the mapping of QTL by regression of phenotype on marker-type
A - Papers appearing in refereed journals
Whittaker, J. C., Thompson, R. and Visscher, P. M. 1996. On the mapping of QTL by regression of phenotype on marker-type. Heredity. 77, pp. 23-32. https://doi.org/10.1038/hdy.1996.104
Confidence intervals in QTL mapping by bootstrapping
A - Papers appearing in refereed journals
Visscher, P. M., Thompson, R. and Haley, C. S. 1996. Confidence intervals in QTL mapping by bootstrapping. Genetics. 143 (2), pp. 1013-1020.
Marker-assisted introgression in backcross breeding programs
A - Papers appearing in refereed journals
Visscher, P. M., Haley, C. S. and Thompson, R. 1996. Marker-assisted introgression in backcross breeding programs. Genetics. 144 (4), pp. 1923-1932.
Analysis of cereal variety trials
C1 - Edited contributions to conferences/learned societies
Thompson, R. 1996. Analysis of cereal variety trials. Williams, D. and Connolly, J. (ed.) Proceedings 7th HARMA Workshop, Dublin, 8 November 1996 . pp. 7-10
Model building in animal breeding
C1 - Edited contributions to conferences/learned societies
Thompson, R. and Crump, R. E. 1996. Model building in animal breeding. Stein, A., Schotman, P. J. and Penningdevries, F. W. T. (ed.) Models in action (Quantitative approaches in systems analysis no. 6) . AB-DLO Research Institute for Agrobiology and Soil Fertility (AB-DLO) Wageningen. pp. 17-21
Investigation of bimodality in likelihoods and posterior densities
A - Papers appearing in refereed journals
Firat, M. Z. and Thompson, R. 1996. Investigation of bimodality in likelihoods and posterior densities. Journal of Statistical Computation and Simulation. 54 (4), pp. 379-386. https://doi.org/10.1080/00949659608811741
The analysis of the NSW wheat variety database. II. Variance component estimation
A - Papers appearing in refereed journals
Cullis, B. R., Thomson, F. M., Fisher, J. A., Gilmour, A. R. and Thompson, R. 1996. The analysis of the NSW wheat variety database. II. Variance component estimation. Theoretical and Applied Genetics. 92 (1), pp. 28-39. https://doi.org/10.1007/BF00222948
The analysis of the NSW wheat variety database. I. Modelling trial error variance
A - Papers appearing in refereed journals
Cullis, B. R., Thomson, F. M., Fisher, J. A., Gilmour, A. R. and Thompson, R. 1996. The analysis of the NSW wheat variety database. I. Modelling trial error variance. Theoretical and Applied Genetics. 92 (1), pp. 21-27. https://doi.org/10.1007/BF00222947
Genstat 3[3] Procedure Library
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1996. Genstat 3[3] Procedure Library. Numerical Algorithms Group, Oxford.
Genstat 5 Release 3.2 version for PC Windows and DOS
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1996. Genstat 5 Release 3.2 version for PC Windows and DOS. Numerical Algorithms Group, Oxford.
Genstat 5 Release 3.2 version for Vax VMS
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1996. Genstat 5 Release 3.2 version for Vax VMS. Numerical Algorithms Group, Oxford.
Genstat 5 for Windows reference manual supplement
D1 - Technical reports: non-confidential
Payne, R. W., Lane, P. W., Baird, D. B., Gilmour, A. R., Harding, S. A., Morgan, G. W., Murray, D. A., Thompson, R., Todd, A. D., Tunnicliffe Wilson, G., Webster, R. and Welham, S. J. 1995. Genstat 5 for Windows reference manual supplement. Oxford Numerical Algorithms Group.
Genstat 3[2] Procedure Library
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1995. Genstat 3[2] Procedure Library. Numerical Algorithms Group, Oxford.
Genstat 5 Release 3.1 version for Hewlatt Packard 9000 Series 700
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1995. Genstat 5 Release 3.1 version for Hewlatt Packard 9000 Series 700. Numerical Algorithms Group, Oxford.
Genstat 5 Release 3.1 version for Dec Alpha AXP OSF/1
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1995. Genstat 5 Release 3.1 version for Dec Alpha AXP OSF/1. Numerical Algorithms Group, Oxford.
Genstat for Windows. Release 3.2 manual supplement
E - Books edited/written by staff member, alone/with others
Payne, R. W., Lane, P. W., Baird, D. B., Harding, S. A., Murray, D. A., Morgan, G. W., Todd, A. D., Thompson, R., Tunnicliffe Wilson, G., Webster, R., Welham, S. J. and White, Robin P. 1995. Genstat for Windows. Release 3.2 manual supplement. Numerical Algorithms Group, Oxford.
Genstat for Windows reference summary
E - Books edited/written by staff member, alone/with others
Payne, R. W., Lane, P. W., Baird, D. B., Harding, S. A., Murray, D. A., Morgan, G. W., Todd, A. D., Thompson, R., Tunnicliffe Wilson, G., Webster, R., Welham, S. J. and White, Robin P. 1995. Genstat for Windows reference summary. Numerical Algorithms Group, Oxford.
Genstat 5 release 3.2 reference summary
E - Books edited/written by staff member, alone/with others
Payne, R. W., Lane, P. W., Baird, D. B., Harding, S. A., Murray, D. A., Morgan, G. W., Todd, A. D., Thompson, R., Tunnicliffe Wilson, G., Webster, R., Welham, S. J. and White, Robin P. 1995. Genstat 5 release 3.2 reference summary. Oxford Numerical Algorithms Group.
Genstat 5 release 3.2 manual supplement
E - Books edited/written by staff member, alone/with others
Payne, R. W., Lane, P. W., Baird, D. B., Harding, S. A., Murray, D. A., Morgan, G. W., Todd, A. D., Thompson, R., Tunnicliffe Wilson, G., Webster, R., Welham, S. J. and White, Robin P. 1995. Genstat 5 release 3.2 manual supplement. Numerical Algorithms Group, Oxford.
Genstat 3[1] Procedure Library
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1994. Genstat 3[1] Procedure Library. Numerical Algorithms Group, Oxford.
Genstat 5 Release 3.1 version for Dec Alpha AXP OpenVMS
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1994. Genstat 5 Release 3.1 version for Dec Alpha AXP OpenVMS. Numerical Algorithms Group, Oxford.
Genstat5 Release 3.1 version for Sun 4 Solaris
J - Computer programs
Pyne, R., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1994. Genstat5 Release 3.1 version for Sun 4 Solaris. Numerical Algorithms Group, Oxford.
Genstat 5 Release 3.1 version for Sun 4 SunOS
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1994. Genstat 5 Release 3.1 version for Sun 4 SunOS. Numerical Algorithms Group, Oxford.
Genstat 5 Release 3.1. Version for PC DOS
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1994. Genstat 5 Release 3.1. Version for PC DOS. Numerical Algorithms Group, Oxford.
Genstat 5 Release 3.1. Vax VMS version
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1994. Genstat 5 Release 3.1. Vax VMS version. Numerical Algorithms Group, Oxford.
Comparisons of some GLMM estimators for a simple binomial model
G - Articles in popular magazines and other technical publications
Waddington, D., Welham, S. J., Gilmour, A. R. and Thompson, R. 1994. Comparisons of some GLMM estimators for a simple binomial model. Genstat newsletter. 30, pp. 13-24.
Genstat 2[3] Procedure Library
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1993. Genstat 2[3] Procedure Library. Numerical Algorithms Group, Oxford.
Genstat 5 Release 2.2. Student version for IBM XT/AT and compatible PCs
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1993. Genstat 5 Release 2.2. Student version for IBM XT/AT and compatible PCs. Numerical Algorithms Group, Oxford.
Genstat 5 Release 3 reference manual
D1 - Technical reports: non-confidential
Payne, R. W., Lane, P. W., Digby, P. G. N., Harding, S. A., Leech, P. K., Morgan, G. W., Todd, A. D., Thompson, R., Tunnicliffe Wilson, G., Welham, S. J. and White, Robin P. 1993. Genstat 5 Release 3 reference manual. Clarendon Press, Oxford.
Genstat 5 Release 3 reference summary
D1 - Technical reports: non-confidential
Payne, R. W., Lane, P. W., Digby, P. G. N., Harding, S. A., Leech, P. K., Morgan, G. W., Todd, A. D., Thompson, R., Tunnicliffe Wilson, G., Welham, S. J. and White, Robin P. 1993. Genstat 5 Release 3 reference summary. Numerical Algorithms Group, Oxford.
Genstat 5 Release 2.2 (implementation for Silicon Graphics)
J - Computer programs
Payne, R. W., Lane, P., Harding, S., Murray, D., Thompson, R., Todd, A. and Welham, S. J. 1992. Genstat 5 Release 2.2 (implementation for Silicon Graphics). Numerical Algorithms Group, Oxford.
Analysis of HMW glutenin subunits encoded by chromosome 1A of bread wheat (Triticum aestivum L.) indicates quantitative effects on grain quality
A - Papers appearing in refereed journals
Halford, N. G., Field, J. M., Blair, H., Urwin, P., Moore, K., Robert, L., Thompson, R., Flavell, R. B., Tatham, A. S. and Shewry, P. R. 1992. Analysis of HMW glutenin subunits encoded by chromosome 1A of bread wheat (Triticum aestivum L.) indicates quantitative effects on grain quality. Theoretical and Applied Genetics. 83 (3), pp. 373-378. https://doi.org/10.1007/BF00224285
REML — a program for the analysis of non-orthogonal data by restricted maximum likelihood
C1 - Edited contributions to conferences/learned societies
Robinson, D. L., Thompson, R. and Digby, P. G. N. 1982. REML — a program for the analysis of non-orthogonal data by restricted maximum likelihood. Compstat 1982, part II (supplement). Vienna, Austria Springer.
Recovery of inter-block information when clock sizes are unequal
A - Papers appearing in refereed journals
Patterson, H. D. and Thompson, R. 1971. Recovery of inter-block information when clock sizes are unequal. Biometrika. 58 (3), pp. 545-554.
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