Dr Vinny Davies

  • Senior Lecturer (Statistics)

Biography

Dr Davies is a Senior Lecturer in Statistics in the School of Mathematics and Statistics specialising analytical methods for digital twins. He completed his Ph.D. in 2016 within the School of Mathematics and Statistics where he focused on variable selection models for selecting antigenic sites in virus evolution. He then completed several post-docteral research positions in both the schools of Statistics and Computing Science, as well as spending time as a Biostatistician at the University of Leeds. He returned to the School of Mathematics and Statistics in 2021 specialising in research and teaching on the inferface between Statistics, Machine Learning, and AI. 

Dr Davies' research is primarily focused on analytical methods for digital twins, with applications across a wide variety of areas including biodiversity, manufacturing, and metabolomics. In 2021 Dr Davies won the Royal Statistical Society's Mardia prize to run a series of workshop of analytics for environmental digital twins. He has active collaborations with NatWest Group, CENSIS, and Apollo Tyres around different applications of digital twins. In addition to his work on digital twins, Dr Davies has a strong focus on computational metabolomics and leads a collaborative projects with Zoetis on heath related quality of life in animals.

Dr Davies is part of the following committees and organisations

and has the following university roles

Research interests

Applications of Digital Twins to impact led problems across any discipline.

Research groups

Publications

List by: Type | Date

Jump to: 2024 | 2023 | 2022 | 2021 | 2020 | 2019 | 2017 | 2016 | 2014 | 2013
Number of items: 24.

2024

MacBride, C., Davies, V. and Lee, D. (2024) A spatial autoregressive random forest algorithm for small-area spatial prediction. Annals of Applied Statistics, (Accepted for Publication)

2023

McBride, R., Wandy, J. , Weidt, S., Rogers, S. , Davies, V. , Daly, R. and Bryson, K. (2023) TopNEXt: automatic DDA exclusion framework for multi-sample mass spectrometry experiments. Bioinformatics, 39(7), btad406. (doi: 10.1093/bioinformatics/btad406) (PMID:37364005)

Wandy, J. , Mcbride, R., Rogers, S. , Terzis, N., Weidt, S., van der Hooft, J. J.J. , Bryson, K. , Daly, R. and Davies, V. (2023) Simulated-to-real benchmarking of acquisition methods in untargeted metabolomics. Frontiers in Molecular Biosciences, 10, 1130781. (doi: 10.3389/fmolb.2023.1130781) (PMID:36959982) (PMCID:PMC10027714)

Harvey, W. T., Davies, V. , Daniels, R. S., Whittaker, L., Gregory, V., Hay, A. J., Husmeier, D. , McCauley, J. W. and Reeve, R. (2023) A Bayesian approach to incorporate structural data into the mapping of genotype to antigenic phenotype of influenza A(H3N2) viruses. PLoS Computational Biology, 19(3), e1010885. (doi: 10.1371/journal.pcbi.1010885) (PMID:36972311) (PMCID:PMC10079231)

2022

Robinson, J. I. et al. (2022) Comprehensive genetic and functional analyses of Fc gamma receptors influence on response to rituximab therapy for autoimmunity. EBioMedicine, 86, 104343. (doi: 10.1016/j.ebiom.2022.104343) (PMID:36371989) (PMCID:PMC9663864)

Wandy, J. , Davies, V. , McBride, R., Weidt, S., Rogers, S. and Daly, R. (2022) ViMMS 2.0: A framework to develop, test and optimise fragmentation strategies in LC-MS metabolomics. Journal of Open Source Software, 7(71), 3990. (doi: 10.21105/joss.03990)

2021

Scott, E. M. , Davies, V. , Nolan, A. M., Noble, C. E., Dowgray, N. J., German, A. J., Wiseman-Orr, M. L. and Reid, J. (2021) Validity and responsiveness of the generic health-related quality of life instrument (VetMetrica™) in cats with osteoarthritis. Comparison of vet and owner impressions of quality of life impact. Frontiers in Veterinary Science, 8, 733812. (doi: 10.3389/fvets.2021.733812)

Davies, V. , Wandy, J. , Weidt, S., van der Hooft, J. J.J. , Miller, A. , Daly, R. and Rogers, S. (2021) Rapid development of improved data-dependent acquisition strategies. Analytical Chemistry, 93(14), pp. 5676-5683. (doi: 10.1021/acs.analchem.0c03895) (PMID:33784814) (PMCID:PMC8047769)

Davies, V. , Reid, J. and Scott, E. M. (2021) Optimisation of scores generated by an online feline health–related quality of life (HRQL) instrument to assist the veterinary user interpret its results. Frontiers in Veterinary Science, 7, 601304. (doi: 10.3389/fvets.2020.601304) (PMID:33490133) (PMCID:PMC7815521)

2020

Arnold, K. F., Davies, V. , de Kamps, M., Tennant, P. W.G., Mbotwa, J. and Gilthorpe, M. S. (2020) Reflection on modern methods: generalized linear models for prognosis and intervention—theory, practice and implications for machine learning. International Journal of Epidemiology, 49(6), pp. 2074-2082. (doi: 10.1093/ije/dyaa049) (PMID:32380551) (PMCID:PMC7825942)

Davies, V. , Scott, E. M. , Wright, A. K. and Reid, J. (2020) Development of an early warning system for owners using a validated health-related quality of life (HRQL) instrument for companion animals and its use in a large cohort of dogs. Frontiers in Veterinary Science, 7, 575795. (doi: 10.3389/fvets.2020.575795) (PMID:33195573) (PMCID:PMC7541963)

2019

Davies, V. , Noè, U. , Lazarus, A., Gao, H. , Macdonald, B. , Berry, C. , Luo, X. and Husmeier, D. (2019) Fast parameter inference in a biomechanical model of the left ventricle by using statistical emulation. Journal of the Royal Statistical Society: Series C (Applied Statistics), 68(5), pp. 1555-1576. (doi: 10.1111/rssc.12374) (PMID:31762497) (PMCID:PMC6856984)

Wandy, J. , Davies, V. , van der Hooft, J. J.J. , Weidt, S., Daly, R. and Rogers, S. (2019) In silico optimization of mass spectrometry fragmentation strategies in metabolomics. Metabolites, 9(10), 219. (doi: 10.3390/metabo9100219) (PMID:31600991)

Davies, V. , Reid, J., Wiseman-Orr, M. L. and Scott, E. M. (2019) Optimising outputs from a validated online instrument to measure health-related quality of life (HRQL) in dogs. PLoS ONE, 14(9), e0221869. (doi: 10.1371/journal.pone.0221869) (PMID:31532799) (PMCID:PMC6750605)

Husmeier, D. , Lazarus, A., Noè, U. , Davies, V. , Borowska, A. , Macdonald, B. , Gao, H. , Berry, C. and Luo, X. (2019) Statistical Emulation of Cardiac Mechanics: an Important Step Towards a Clinical Decision Support System. In: International Conference on Statistics: Theory and Applications (ICSTA’19), Lisbon, Portugal, 13-14 Aug 2019, p. 29. ISBN 9781927877647 (doi: 10.11159/icsta19.29)

Davies, V. , Harvey, W. T., Reeve, R. and Husmeier, D. (2019) Improving the identification of antigenic sites in the H1N1 Influenza virus through accounting for the experimental structure in a sparse hierarchical Bayesian model. Journal of the Royal Statistical Society: Series C (Applied Statistics), 68(4), pp. 859-885. (doi: 10.1111/rssc.12338) (PMID:31598013) (PMCID:PMC6774336)

Noè, U. , Lazarus, A., Gao, H. , Davies, V. , Macdonald, B. , Mangion, K., Berry, C. , Luo, X. and Husmeier, D. (2019) Gaussian process emulation to accelerate parameter estimation in a mechanical model of the left ventricle: a critical step towards clinical end-user relevance. Journal of the Royal Society: Interface, 16(156), 20190114. (doi: 10.1098/rsif.2019.0114) (PMID:31266415) (PMCID:PMC6685034)

Moesta, A., Hours, M.A., Boutigny, L., Davies, V. , Kelly, S., Mougeotc, I. and Reid, J. (2019) A Weight Loss Diet With Alpha-casozepine and L-tryptophane Improves Health Related Quality of Life in Dogs. In: 12th International Veterinary Behaviour Meeting 2019, Washington, D.C., USA, 30 Jul - 01 Aug 2019, pp. 66-74. ISBN 9781527242326

2017

Davies, V. , Reeve, R. , Harvey, W. T., Maree, F. F. and Husmeier, D. (2017) A sparse hierarchical Bayesian model for detecting relevant antigenic sites in virus evolution. Computational Statistics, 32(3), pp. 803-843. (doi: 10.1007/s00180-017-0730-6)

2016

Davies, V. , Reeve, R. , Harvey, W. T. and Husmeier, D. (2016) Selecting random effect components in a sparse hierarchical Bayesian model for identifying antigenic variability. In: Computational Intelligence Methods for Bioinformatics and Biostatistics: 12th International Meeting, CIBB 2015, Naples, Italy, September 10-12, 2015, Revised Selected Papers. Series: Lecture Notes in Computer Science (9874). Springer, pp. 14-27. ISBN 9783319443317 (doi: 10.1007/978-3-319-44332-4_2)

2014

Davies, V. , Reeve, R. , Harvey, W., Maree, F. and Husmeier, D. (2014) Sparse Bayesian variable selection for the identification of antigenic variability in the Foot-and-Mouth disease virus. Proceedings of Machine Learning Research, 33, pp. 149-158.

Davies, V. and Husmeier, D. (2014) Modelling transcriptional regulation with Gaussian processes. In: Valente, A. X.C.N., Sarkar, A. and Gao, Y. (eds.) Recent Advances in Systems Biology Research. Nova Science Publishers: New York, pp. 157-184. ISBN 9781629487366

2013

Chanialidis, C. , Craigmile, P., Davies, V. , Dean, N. , Evers, L. , Filiippone, M., Gupta, M. , Ray, S. and Rogers, S. (2013) Discussion of Henning and Liao: How to find an appropriate clustering for mixed type variables with application to socio-economic stratification. Journal of the Royal Statistical Society: Series C. 62, 309-369. Discussion Paper. Springer. (doi: 10.1111/j.1467-9876.2012.01066.x).

Davies, V. and Husmeier, D. (2013) Assessing the impact of non-additive noise on modelling transcriptional regulation with Gaussian processes. In: Muggeo, V.M.R., Capursi, V., Boscaino, G. and Lovison, G. (eds.) Proceedings of the 28th International Workshop on Statistical Modelling. Gruppo Istituto Poligrafico Europeo SRL, pp. 559-562. ISBN 9788896251492

This list was generated on Thu Nov 21 03:26:17 2024 GMT.
Jump to: Articles | Book Sections | Research Reports or Papers | Conference Proceedings
Number of items: 24.

Articles

MacBride, C., Davies, V. and Lee, D. (2024) A spatial autoregressive random forest algorithm for small-area spatial prediction. Annals of Applied Statistics, (Accepted for Publication)

McBride, R., Wandy, J. , Weidt, S., Rogers, S. , Davies, V. , Daly, R. and Bryson, K. (2023) TopNEXt: automatic DDA exclusion framework for multi-sample mass spectrometry experiments. Bioinformatics, 39(7), btad406. (doi: 10.1093/bioinformatics/btad406) (PMID:37364005)

Wandy, J. , Mcbride, R., Rogers, S. , Terzis, N., Weidt, S., van der Hooft, J. J.J. , Bryson, K. , Daly, R. and Davies, V. (2023) Simulated-to-real benchmarking of acquisition methods in untargeted metabolomics. Frontiers in Molecular Biosciences, 10, 1130781. (doi: 10.3389/fmolb.2023.1130781) (PMID:36959982) (PMCID:PMC10027714)

Harvey, W. T., Davies, V. , Daniels, R. S., Whittaker, L., Gregory, V., Hay, A. J., Husmeier, D. , McCauley, J. W. and Reeve, R. (2023) A Bayesian approach to incorporate structural data into the mapping of genotype to antigenic phenotype of influenza A(H3N2) viruses. PLoS Computational Biology, 19(3), e1010885. (doi: 10.1371/journal.pcbi.1010885) (PMID:36972311) (PMCID:PMC10079231)

Robinson, J. I. et al. (2022) Comprehensive genetic and functional analyses of Fc gamma receptors influence on response to rituximab therapy for autoimmunity. EBioMedicine, 86, 104343. (doi: 10.1016/j.ebiom.2022.104343) (PMID:36371989) (PMCID:PMC9663864)

Wandy, J. , Davies, V. , McBride, R., Weidt, S., Rogers, S. and Daly, R. (2022) ViMMS 2.0: A framework to develop, test and optimise fragmentation strategies in LC-MS metabolomics. Journal of Open Source Software, 7(71), 3990. (doi: 10.21105/joss.03990)

Scott, E. M. , Davies, V. , Nolan, A. M., Noble, C. E., Dowgray, N. J., German, A. J., Wiseman-Orr, M. L. and Reid, J. (2021) Validity and responsiveness of the generic health-related quality of life instrument (VetMetrica™) in cats with osteoarthritis. Comparison of vet and owner impressions of quality of life impact. Frontiers in Veterinary Science, 8, 733812. (doi: 10.3389/fvets.2021.733812)

Davies, V. , Wandy, J. , Weidt, S., van der Hooft, J. J.J. , Miller, A. , Daly, R. and Rogers, S. (2021) Rapid development of improved data-dependent acquisition strategies. Analytical Chemistry, 93(14), pp. 5676-5683. (doi: 10.1021/acs.analchem.0c03895) (PMID:33784814) (PMCID:PMC8047769)

Davies, V. , Reid, J. and Scott, E. M. (2021) Optimisation of scores generated by an online feline health–related quality of life (HRQL) instrument to assist the veterinary user interpret its results. Frontiers in Veterinary Science, 7, 601304. (doi: 10.3389/fvets.2020.601304) (PMID:33490133) (PMCID:PMC7815521)

Arnold, K. F., Davies, V. , de Kamps, M., Tennant, P. W.G., Mbotwa, J. and Gilthorpe, M. S. (2020) Reflection on modern methods: generalized linear models for prognosis and intervention—theory, practice and implications for machine learning. International Journal of Epidemiology, 49(6), pp. 2074-2082. (doi: 10.1093/ije/dyaa049) (PMID:32380551) (PMCID:PMC7825942)

Davies, V. , Scott, E. M. , Wright, A. K. and Reid, J. (2020) Development of an early warning system for owners using a validated health-related quality of life (HRQL) instrument for companion animals and its use in a large cohort of dogs. Frontiers in Veterinary Science, 7, 575795. (doi: 10.3389/fvets.2020.575795) (PMID:33195573) (PMCID:PMC7541963)

Davies, V. , Noè, U. , Lazarus, A., Gao, H. , Macdonald, B. , Berry, C. , Luo, X. and Husmeier, D. (2019) Fast parameter inference in a biomechanical model of the left ventricle by using statistical emulation. Journal of the Royal Statistical Society: Series C (Applied Statistics), 68(5), pp. 1555-1576. (doi: 10.1111/rssc.12374) (PMID:31762497) (PMCID:PMC6856984)

Wandy, J. , Davies, V. , van der Hooft, J. J.J. , Weidt, S., Daly, R. and Rogers, S. (2019) In silico optimization of mass spectrometry fragmentation strategies in metabolomics. Metabolites, 9(10), 219. (doi: 10.3390/metabo9100219) (PMID:31600991)

Davies, V. , Reid, J., Wiseman-Orr, M. L. and Scott, E. M. (2019) Optimising outputs from a validated online instrument to measure health-related quality of life (HRQL) in dogs. PLoS ONE, 14(9), e0221869. (doi: 10.1371/journal.pone.0221869) (PMID:31532799) (PMCID:PMC6750605)

Davies, V. , Harvey, W. T., Reeve, R. and Husmeier, D. (2019) Improving the identification of antigenic sites in the H1N1 Influenza virus through accounting for the experimental structure in a sparse hierarchical Bayesian model. Journal of the Royal Statistical Society: Series C (Applied Statistics), 68(4), pp. 859-885. (doi: 10.1111/rssc.12338) (PMID:31598013) (PMCID:PMC6774336)

Noè, U. , Lazarus, A., Gao, H. , Davies, V. , Macdonald, B. , Mangion, K., Berry, C. , Luo, X. and Husmeier, D. (2019) Gaussian process emulation to accelerate parameter estimation in a mechanical model of the left ventricle: a critical step towards clinical end-user relevance. Journal of the Royal Society: Interface, 16(156), 20190114. (doi: 10.1098/rsif.2019.0114) (PMID:31266415) (PMCID:PMC6685034)

Davies, V. , Reeve, R. , Harvey, W. T., Maree, F. F. and Husmeier, D. (2017) A sparse hierarchical Bayesian model for detecting relevant antigenic sites in virus evolution. Computational Statistics, 32(3), pp. 803-843. (doi: 10.1007/s00180-017-0730-6)

Davies, V. , Reeve, R. , Harvey, W., Maree, F. and Husmeier, D. (2014) Sparse Bayesian variable selection for the identification of antigenic variability in the Foot-and-Mouth disease virus. Proceedings of Machine Learning Research, 33, pp. 149-158.

Book Sections

Davies, V. , Reeve, R. , Harvey, W. T. and Husmeier, D. (2016) Selecting random effect components in a sparse hierarchical Bayesian model for identifying antigenic variability. In: Computational Intelligence Methods for Bioinformatics and Biostatistics: 12th International Meeting, CIBB 2015, Naples, Italy, September 10-12, 2015, Revised Selected Papers. Series: Lecture Notes in Computer Science (9874). Springer, pp. 14-27. ISBN 9783319443317 (doi: 10.1007/978-3-319-44332-4_2)

Davies, V. and Husmeier, D. (2014) Modelling transcriptional regulation with Gaussian processes. In: Valente, A. X.C.N., Sarkar, A. and Gao, Y. (eds.) Recent Advances in Systems Biology Research. Nova Science Publishers: New York, pp. 157-184. ISBN 9781629487366

Davies, V. and Husmeier, D. (2013) Assessing the impact of non-additive noise on modelling transcriptional regulation with Gaussian processes. In: Muggeo, V.M.R., Capursi, V., Boscaino, G. and Lovison, G. (eds.) Proceedings of the 28th International Workshop on Statistical Modelling. Gruppo Istituto Poligrafico Europeo SRL, pp. 559-562. ISBN 9788896251492

Research Reports or Papers

Chanialidis, C. , Craigmile, P., Davies, V. , Dean, N. , Evers, L. , Filiippone, M., Gupta, M. , Ray, S. and Rogers, S. (2013) Discussion of Henning and Liao: How to find an appropriate clustering for mixed type variables with application to socio-economic stratification. Journal of the Royal Statistical Society: Series C. 62, 309-369. Discussion Paper. Springer. (doi: 10.1111/j.1467-9876.2012.01066.x).

Conference Proceedings

Husmeier, D. , Lazarus, A., Noè, U. , Davies, V. , Borowska, A. , Macdonald, B. , Gao, H. , Berry, C. and Luo, X. (2019) Statistical Emulation of Cardiac Mechanics: an Important Step Towards a Clinical Decision Support System. In: International Conference on Statistics: Theory and Applications (ICSTA’19), Lisbon, Portugal, 13-14 Aug 2019, p. 29. ISBN 9781927877647 (doi: 10.11159/icsta19.29)

Moesta, A., Hours, M.A., Boutigny, L., Davies, V. , Kelly, S., Mougeotc, I. and Reid, J. (2019) A Weight Loss Diet With Alpha-casozepine and L-tryptophane Improves Health Related Quality of Life in Dogs. In: 12th International Veterinary Behaviour Meeting 2019, Washington, D.C., USA, 30 Jul - 01 Aug 2019, pp. 66-74. ISBN 9781527242326

This list was generated on Thu Nov 21 03:26:17 2024 GMT.

Grants

Large Grants

ExaGeo (Exascale computing for Earth, Environmental, and Sustainability Solutions) CDT (Co-I) - TBC [announcement]

EPSRC Centre for Future PCI Planning (co-I) - £1,499,146

Energy-related Emissions Analytics for Sustainable Finance (PI) - NatWest Group / EPSRC IAA - £375,730

Small Grants

Generating Deep Fake Left Ventricle Images: a Step Towards Personalised Heart Treatments  (PI) - EPSRC SofTMech Collaboration Grant - £13,189

Royal Statistical Society Mardia Prize (PI) - £7,000

Edinburgh Mathematical Institute Summer Student Grant (PI) - £900

Internal Grants

Collaborative PhD Studentship, University of Glasgow (PI) - ~£75,000

Reinvigorating Research Grant, University of Glasgow (PI) - £28,631

 

Supervision

Current Research Associates

Current PhD Students

  • Coats, Aaron
    Bayesian variable selection for genetic and genomic studies
  • Davison, Emily
    Designing advanced statistical inference methods for learning the parameters of a mathematical biodiversity model
  • Li, Fengjiao
    Spatio-temporal modelling of big disease data combining machine learning and spatial statistics
  • Ren, Hongjin
    Gaussian Process Emulation for Mathematical Models of the Heart
  • Terzis, Nikolaos
    MSDeconvolve: A new metabolomics fragmentation spectra resolver using statistics and machine learning.

Former PhD Students

Former MRes Students

Research datasets

Jump to: 2022 | 2021 | 2019
Number of items: 3.

2022

Wandy, J. , McBride, R., Weidt, S., Rogers, S. , Terzis, N., van der Hooft, J. J. J., Bryson, K. , Daly, R. and Davies, V. (2022) DDA and DIA data for ViMMS 2.0. [Data Collection]

2021

Davies, V. , Wandy, J., Weidt, S., van der Hooft, J., Miller, A. , Daly, R. and Rogers, S. (2021) Rapid Development of Improved Data-Dependent Acquisition Strategies. [Data Collection]

2019

Wandy, J., Davies, V. , van der Hooft, J., Weidt, S., Daly, R. and Rogers, S. (2019) In-silico Optimisation of Mass Spectrometry Fragmentation Strategies in Metabolomics. [Data Collection]

This list was generated on Wed Nov 20 19:50:58 2024 GMT.