Theo Pepler

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Research

Most of my scientific research work is applied in nature, using statistical and simulation methods to investigate biological questions.

On the methodological side, I am most interested in multivariate analysis -- spectral decomposition, in particular -- and nonparametric techniques.


GRANT FUNDING

Developing a Foot-and-Mouth Disease Simulation Model for the SimInf Framework
Lister/Bellahouston Travel Fellowship, University of Glasgow, 2020

Antimicrobial Resistance in Companion Animals: Molecular Epidemiology and Outbreak Detection
Small Animal Hospital Fund, University of Glasgow, 2019 - 2022

Rapid, Accurate, On-farm Diagnosis and Monitoring of Mastitis in Dairy Cows
Innovate UK, 2018 - 2020

Centre of Expertise on Animal Disease Outbreaks (EPIC)
Scottish Government (RESAS), 2015 - 2021

PUBLICATIONS

[11] Association of days in close up, gestation length and rumination around time of calving with disease and pregnancy outcomes in dairy cows
Cook, J. G., Pepler, P. T. and Viora, L.
Journal of Dairy Science (2021, in press) [Download]

[10] Laboratory-based evaluation of a simplified point-of-care test intended to support treatment decisions in non-severe bovine clinical mastitis
Malcata, F. B., Viora, L., Pepler, P. T. and Zadoks, R.N.
Journal of Dairy Research (2021, in press) [Download]

[9] Multi-species temporal network of livestock movements for disease spread
Ruget, AS., Rossi, G., Pepler, P. T., Beaunée, G., Banks, C. J., Enright, J. and Kao, R. R.
Applied Network Science (2021), 6(15) [Download]

[8] Point-of-care tests for bovine clinical mastitis: What do we have and what do we need?
Malcata, F. B., Pepler, P. T., O'Reilly, E., Brady, N., Eckersall, P. D., Zadoks, R. N. and Viora, L.
Journal of Dairy Research (2020), 87(S1): 60-66 [Download]

[7] Regularized covariance matrix estimation under the common principal components model
Pepler, P. T., Uys, D. W. and Nel, D. G.
Communications in Statistics - Simulation and Computation (2018), 47(3): 631-643 [Download]

[6] Harbin: A quantitation PCR analysis tool
Bester, R., Pepler, P. T., Aldrich, D. J. and Maree, H. J.
Biotechnology Letters (2017), 39(1): 171-178 [Download]

[5] Discriminant analysis under the common principal components model
Pepler, P. T., Uys, D. W. and Nel, D. G.
Communications in Statistics - Simulation and Computation (2017), 46(6): 4812-4827 [Download]

[4] A comparison of some methods for the selection of a common eigenvector model for the covariance matrices of two groups
Pepler, P. T., Uys, D. W. and Nel, D. G.
Communications in Statistics - Simulation and Computation (2016), 45(8): 2917-2936 [Download]

[3] Relative quantitation goes viral: An RT-qPCR assay to determine the concentration of a grapevine virus
Bester, R., Pepler, P. T., Burger, J. T. and Maree, H. J.
Journal of Virological Methods (2014), 210: 67-75 [Download]

[2] An observational audit of pain scores post-orthopaedic surgery at a level two state hospital in Cape Town
Hauser, N. D., Dyer, R. A., Pepler, P. T. and Rolfe, D. A.
South African Journal of Anaesthesia and Analgesia (2014), 20(2): 110-116 [Download]

[1] Predicting mortality and length-of-stay for neonatal admissions to private hospital neonatal intensive care units: A Southern African retrospective study
Pepler, P. T., Uys, D. W. and Nel, D. G.
African Health Sciences (2012), 12(2): 166-173 [Download]

WORKING PAPERS

Genomic epidemiology of Mycobacterium bovis infection in sympatric badger and cattle populations in Northern Ireland
Akhmetova, A., Guerrero, J., McAdam, P., et al.
[preprint]

Understanding the spatial and genetic distribution of Mycobacterium bovis in a multi-host system in Northern Ireland
Akhmetova, A., et al.

Assessing Recovery of the Teat Canal During Lactation and Dry Period by High Resolution Ultrasound
Berteau, M., Pepler, P. T., Broadhurst, A., Hammond, G., Zadoks, R. N. and Viora, L.

Comparison of three reproductive management strategies for lactating dairy cows emphasizing detection of estrus or synchronization of ovulation and Timed Artificial Insemination (TAI) at first AI
Vazquez, R., Denholm, K., Pepler, P. T., Pinho, P., Randi, F. and Viora, L.

CONFERENCE PAPERS AND POSTERS

Comparison of two point-of-care tests to support treatment decisions in non-severe bovine clinical mastitis
Malcata, F. B., Viora, L., Pepler, P. T. and Zadoks, R. N.
British Mastitis Conference 2019, Worcester, United Kingdom, Nov 2019

Grouping Scottish Agricultural Premises Based on Estimated Risk for Initiating Epidemic Veterinary Disease Outbreaks
Pepler, P. T. and Kao, R. R.
EPIC III Conference 2019, Edinburgh, United Kingdom, Sep 2019 [Poster]

New Biomarkers for Selective Dry Cow Therapy
Viora, L., O'Reilly, E., Brady, N., Pepler, T., Zadoks, R. and Eckersall, D.
European Bovine Congress 2019, 's-Hertogenbosch, The Netherlands, Sep 2019

Haptoglobin and α-lactalbumin biomarkers for selective dry cow therapy?
O'Reilly, E. L., Viora, L., Brady, N., Pepler, T., Zadoks, R. N. and Eckersall, P. D.
IDF Mastitis Conference 2019, Copenhagen, Denmark, May 2019 [Poster]

Combining Cattle Movement Data with Stochastic Epidemiological Models to Identify Key Premises for Disease Spread
Pepler, P. T. and Kao, R. R.
7th Channel Network conference of the International Biometric Society, Rothamsted Research, United Kingdom, Jul 2019 [Slides]

Land Use and Disease Risk
Gilbert, L., Bessell, P., Hutchinson, I., Auty, H., Pepler, T. and Boden, L.
Land-Use Conference, Edinburgh, United Kingdom, Nov 2018 [Poster]

A spatial network model of deer populations in Great Britain to inform surveillance and control strategies for Chronic Wasting Disease
Pepler, P. T.
The 29th International Biometric Conference, Barcelona, Spain, Jul 2018 [Slides]

Key premises for disease transmission in movement networks
Pepler, P. T. and Kao, R. R.
EPIC III Conference 2017, Edinburgh, United Kingdom, Sep 2017 [Video]

A common singular spectrum analysis of bovine tuberculosis incidence in Great Britain
Pepler, P. T. and Kao, R. R.
Royal Statistical Society (RSS) 2016 International Conference, Manchester, United Kingdom, Sep 2016 [Slides]

Development of alert systems: CUSUM control charts to identify unusual bovine TB outbreaks in Scottish cattle herds
Pepler, P. T. and Kao, R. R.
Annual Meeting of the Society for Veterinary Epidemiology and Preventive Medicine (SVEPM), Elsinore, Denmark, Mar 2016 [Poster]

On the application of the CPC model in discriminant analysis
Pepler, P. T.
The 56th annual conference of the South African Statistical Association (SASA), Grahamstown, South Africa, Oct 2014 [Slides]

The regularised CPC covariance matrix estimator and its application in discriminant analysis
Pepler, P. T.
The 27th International Biometric Conference, Florence, Italy, Jul 2014 [Poster]

Efficiency of the CPC estimator in modelling the covariance structures of several populations
Pepler, P. T.
The 55th annual conference of the South African Statistical Association (SASA), Polokwane, South Africa, Nov 2013 [Slides]

Comparison of some methods for the identification of common eigenvectors
Pepler, P. T.
The 54th annual conference of the South African Statistical Association (SASA), Port Elizabeth, South Africa, Nov 2012 [Slides]

On the identification of common principal components
Pepler, P. T.
8th World Congress in Probability and Statistics, Istanbul, Turkey, Jul 2012 [Slides]

On the application of common principal components in biplots
Pepler, P. T.
The 53rd annual conference of the South African Statistical Association (SASA), Pretoria, South Africa, Nov 2011 [Slides]

SEMINARS AND OTHER TALKS

CWD Modelling in British Deer
Presentation at Scottish Veterinary Zoonoses Group Meeting, Moredun Research Institute, Scotland, Jun 2018

The SSA-cusum method for monitoring surveillance time series
Seminar at Epidemiology Research Unit, Scotland's Rural College (SRUC), Inverness, Scotland, Jun 2017

Making disease modelling results accessible to farmers
Presentation at Beef & Sheep Industry Interface Meeting, Perth, Scotland, Jan 2017

Applications of the Common Principal Component model: How borrowing information about multivariate data structure can be useful
Seminar at Computing Science and Mathematics, University of Stirling, Stirling, Scotland, Sep 2016 [Slides]

Common principal components
Seminar at the Department of Statistical Sciences, University of Cape Town, Cape Town, South Africa, Sep 2014 [Slides]

Common principal components
Seminar at Department of Statistics and Actuarial Science, Stellenbosch University, Stellenbosch, South Africa, Aug 2011 [Slides]

VON Data Analysis: Interpretation of the statistics
Vermont Oxford Network (VON) Symposium, Somerset West, South Africa, Oct 2008 [Slides]

OTHER RESEARCH OUTPUT

Network Representation of Deer in Great Britain to Inform Surveillance and Control of Infectious Disease
Pepler, P. T. and Kao, R. R.
Policy brief to Scottish Government, Nov 2018

Evaluation of the quantitative evidence-base to support the construction of surveillance models for Chronic Wasting Disease in British Deer
Pepler, P. T. and Kao, R. R.
DEFRA Evidence Project Final Report SE2024, Jul 2018

The Identification and Application of Common Principal Components
Pepler, P. T.
PhD dissertation, Dec 2014 [Download]

Discovery Health Hospital Rating Index Version 3 Presentation: Medi-Clinic Response
Pepler, P. T.
Technical report, Sep 2008

Discovery Health Hospital Rating Index Version 2: Medi-Clinic Response
Pepler, P. T.
Technical report, Nov 2007

Discovery Health Hospital Rating Index Version 2: Medi-Clinic Report
Pepler, P. T.
Technical report, Sep 2007

Detecting Active Effects in Unreplicated 2k Factorial Experiments: A Simulation Study
Pepler, P. T.
Masters degree assignment, Dec 2006 [Download]