Vinny Davies

Vinny Davies
University of Glasgow | UofG · School of Computing Science

B.Sc. M.Sc., Ph.D.

About

25
Publications
2,893
Reads
How we measure 'reads'
A 'read' is counted each time someone views a publication summary (such as the title, abstract, and list of authors), clicks on a figure, or views or downloads the full-text. Learn more
101
Citations
Introduction
Dr Davies is currently a Research Associate in the School of Computing Science. He did his undergraduate in Mathematics and Masters in Statistics at Lancaster University, before moving to the School of Mathematics and Statistics at the University of Glasgow to do his Ph.D, where he focused on variable selection models for selecting antigenic sites in virus evolution. He then worked on methods for parameter in mathematical models of the heart, before moving to the University of Leeds to become a Biostatistician. He then returned to the University in Septemeber 2018 to become a Research Associate working as part of the EPSRC Closed-Loop Data Science project. As part of this project,he looks at developing new methods for closed loop mass spectrometry measurement and analysis of metabolomics.
Additional affiliations
June 2017 - present
University of Leeds
Position
  • Research Biostatistician
December 2016 - May 2017
University of Glasgow
Position
  • Research Assistant
September 2013 - December 2016
University of Glasgow
Position
  • Postgraduate Tutor
Description
  • Teaching 2nd and 4th year workshops on Probability and demonstrating for 4th/Master's Computational Inference course
Education
October 2012 - December 2016
University of Glasgow
Field of study
  • Statistics
September 2011 - September 2012
Lancaster University
Field of study
  • Statistics
October 2009 - June 2011
Lancaster University
Field of study
  • Mathematics

Publications

Publications (25)
Article
Full-text available
Vaccines created from closely related viruses are vital for offering protection against newly emerging strains. For Foot-and-Mouth dis-ease virus (FMDV), where multiple serotypes co-circulate, testing large numbers of vac-cines can be infeasible. Therefore the de-velopment of an in silico predictor of cross-protection between strains is important t...
Conference Paper
Full-text available
In transcriptional regulation, transcription factors (TFs) are often unobservable at mRNA level or may be controlled outside of the system being modelled. Gaussian processes are a promising approach for dealing with these difficulties as a prior distribution can be defined over the latent TF activity profiles and the posterior distribution inferred...
Thesis
Full-text available
Understanding how virus strains offer protection against closely related emerging strains is vital for creating effective vaccines. For many viruses, including Foot-and-Mouth Disease Virus (FMDV) and the Influenza virus where multiple serotypes often co-circulate, in vitro testing of large numbers of vaccines can be infeasible. Therefore the develo...
Conference Paper
In Foot-and-Mouth Disease Virus (FMDV), understanding how viruses offer protection against related emerging strains is vital for creating effective vaccines. With testing large numbers of vaccines being infeasible, the development of an in silico predictor of cross-protection between virus strains has been a vital area of recent research. The curre...
Preprint
Surface antigens of pathogens are commonly targeted by vaccine-elicited antibodies but antigenic variability, notably in RNA viruses such as influenza, HIV and SARS-CoV-2, pose challenges for control by vaccination. For example, influenza A(H3N2) entered the human population in 1968 causing a pandemic and has since been monitored, along with other...
Article
Full-text available
Validity is not an inherent property of a measurement scale and so evidence for validity relating to its use for particular purposes, with defined populations and in specified contexts must be accumulated. We have published the development of a web-based, generic health-related quality of life instrument (VetMetrica™) to measure the affective impac...
Article
Full-text available
Tandem mass spectrometry (LC-MS/MS) is widely used to identify unknown ions in untargeted metabolomics. Data-dependent acquisition (DDA) chooses which ions to fragment based upon intensities observed in MS1 survey scans and typically only fragments a small subset of the ions present. Despite this inefficiency, relatively little work has addressed t...
Article
Full-text available
Using methodology previously described for the dog health-related quality of life (HRQL) tool (VetMetrica™), the aim was to optimize the scores profile of a comparable feline online HRQL instrument for monitoring HRQL in cats, to assist in its interpretation. Measuring HRQL helps quantify the impact of disease and its treatment on well-being, aids...
Preprint
Full-text available
Tandem mass spectrometry (LC-MS/MS) is widely used to identify unknown ions in untargeted metabolomics. Data Dependent Acquisition (DDA) chooses which ions to fragment based upon intensity observed in MS1 survey scans and typically only fragment a small subset of the ions present. Despite this inefficiency, relatively little work has addressed the...
Article
Full-text available
Preventive measures in human healthcare are recognized as a means of providing early detection of disease, however, the veterinary profession has not been as effective in communicating the benefits of preventive measures to pet owners. Readily available pet healthcare information on the internet, owners not understanding that regular health evaluat...
Article
Full-text available
Prediction and causal explanation are fundamentally distinct tasks of data analysis. In health applications, this difference can be understood in terms of the difference between prognosis (prediction) and prevention/treatment (causal explanation). Nevertheless, these two concepts are often conflated in practice. We use the framework of generalized...
Preprint
Full-text available
Prediction and causal explanation are fundamentally distinct tasks of data analysis. In health applications, this difference can be understood in terms of the difference between prognosis (prediction) and prevention/treatment (causal explanation). Nevertheless, these two concepts are often conflated in practice. We use the framework of generalised...
Article
Full-text available
Liquid chromatography (LC) coupled to tandem mass spectrometry (MS/MS) is widely used in identifying small molecules in untargeted metabolomics. Various strategies exist to acquire MS/MS fragmentation spectra; however, the development of new acquisition strategies is hampered by the lack of simulators that let researchers prototype, compare, and op...
Article
Full-text available
A central problem in biomechanical studies of personalized human left ventricular modelling is estimating the material properties and biophysical parameters from in vivo clinical measurements in a timeframe that is suitable for use within a clinic. Understanding these properties can provide insight into heart function or dysfunction and help to inf...
Article
Full-text available
Measurement of health-related quality of life (HRQL) is becoming increasingly valuable within veterinary preventative health care and chronic disease management, as well as in outcomes research. Initial reliability and validation of a 22 item shortened version of VetMetrica (VM), structured questionnaire instrument to measure HRQL in dogs via a mob...
Preprint
Full-text available
Liquid-Chromatography (LC) coupled to tandem mass spectrometry (MS/MS) is widely used in identifying small molecules in untargeted metabolomics. Various strategies exist to acquire MS/MS fragmentation spectra; however, the development of new acquisition strategies is hampered by the lack of simulators that let researchers prototype, compare, and op...
Article
In recent years, we have witnessed substantial advances in the mathematical modelling of the biomechanical processes underlying the dynamics of the cardiac soft-tissue. Gao et al. (Gao et al. 2017 J. R. Soc. Interface 14, 20170203 ( doi:10.1098/rsif.2017.0203 )) demonstrated that the parameters underlying the biomechanical model have diagnostic val...
Preprint
Full-text available
A central problem in biomechanical studies of personalised human left ventricular (LV) modelling is estimating the material properties and biophysical parameters from in-vivo clinical measurements in a time frame suitable for use within a clinic. Understanding these properties can provide insight into heart function or dysfunction and help inform p...
Article
Full-text available
Understanding how genetic changes allow emerging virus strains to escape the protection afforded by vaccination is vital for the maintenance of effective vaccines. In the current work, we use structural and phylogenetic differences between pairs of virus strains to identify important antigenic sites on the surface of the influenza A(H1N1) virus thr...
Article
Full-text available
Understanding how viruses offer protection against closely related emerging strains is vital for creating effective vaccines. For many viruses, multiple serotypes often co-circulate and testing large numbers of vaccines can be infeasible. Therefore the development of an in silico predictor of cross-protection between strains is important to help op...
Chapter
Full-text available
A challenging problem in systems biology is the quantitative modelling of transcriptional regulation. Transcription factors (TFs), which are the key proteins at the centre of the regulatory processes, may be subject to post-translational modification, rendering them unobservable at the mRNA level, or they may be controlled outside of the subsystem...

Network

Cited By