EPSRC Hub for Quantitative Modelling in Healthcare
Lead Research Organisation:
UNIVERSITY OF EXETER
Department Name: Mathematics
Abstract
Our Hub brings together a team of mathematicians, statisticians and clinicians with a range of industrial partners, patients and other stakeholders to focus on the development of new quantitative methods for applications to diagnosing and managing long-term health conditions such as diabetes and psychosis and combating antimicrobial infections such as sepsis and bronchiectasis. This approach is underpinned by the world-leading expertise in diabetes, microbial communities, medical mycology and mental health concentrated at the University of Exeter. It uses the breadth of theoretical and methodological expertise of the Hub's team to give innovative approaches to both research and translational aspects.
Although quantitative modelling is a well-established tool used in the fields of economics and finance, cutting-edge quantitative analysis has only recently become possible in health care. However, up to now it has been restricted to health economics in the context of healthcare services and systems management. Applications to develop future therapies, optimising treatments and improving community health and care are in its infancy. This is due to a number of challenges from both mathematical (methodological) as well as clinical and patients' perspectives. Our Hub approach will allow us to develop novel statistical and mathematical methodologies of relevance to our clinical and industrial partners, informed by relevant patient groups. Building this new generation of quantitative models requires that we advance our mathematical understanding of the effective network interaction and emergent patterns of health and disease. Clinical translation of mathematical and statistical advances necessitates that we further develop robust uncertainty quantification methodology for novel therapy, treatment or intervention prediction and evaluation.
NHS long-term planning aspires to deliver healthcare that is more personalised and patient centred, more focused on prevention, and more likely to be delivered in the community, out of hospital. Our Hub will contribute to this through developing mathematical and statistical tools needed to inform clinical decision making on a patient-by-patient basis. The basis of this approach is quantitative patient-specific mathematical models, the parameters of which are determined directly from individual patient's data.
As an example of this, our recent research in the field of mental health has revealed that movement signatures could be used to distinguish between healthy subjects and patients with schizophrenia. This hypothesis was tested in a cohort of people with schizophrenia and we developed a quantitative analysis pipe line allowing for classification of individuals as healthy or patients. The features used for classification involving data-driven models of individual movement properties as well as measures of coordination with a virtual partner were proposed as a novel biomarker of social phobias. To validate this in an NHS setting, we have recently carried out a feasibility study in collaboration with the early intervention for psychosis teams in Devon Partnership Mental Health Trust. The success of this study could significantly advance the early detection of psychosis by enabling diagnosis using novel markers that are easily measured and analysed and improve accuracy of diagnosis.
Indeed, personalised quantitative models hold the promise for transforming prognosis, diagnosis and treatment of a wide range of clinical conditions. For example, in diabetes where a range of treatment options exist, identifying the optimal medication, and the pattern of its delivery, based upon the profile of the individual will enable us to maximise efficacy, whilst minimising unwanted side effects.
Although quantitative modelling is a well-established tool used in the fields of economics and finance, cutting-edge quantitative analysis has only recently become possible in health care. However, up to now it has been restricted to health economics in the context of healthcare services and systems management. Applications to develop future therapies, optimising treatments and improving community health and care are in its infancy. This is due to a number of challenges from both mathematical (methodological) as well as clinical and patients' perspectives. Our Hub approach will allow us to develop novel statistical and mathematical methodologies of relevance to our clinical and industrial partners, informed by relevant patient groups. Building this new generation of quantitative models requires that we advance our mathematical understanding of the effective network interaction and emergent patterns of health and disease. Clinical translation of mathematical and statistical advances necessitates that we further develop robust uncertainty quantification methodology for novel therapy, treatment or intervention prediction and evaluation.
NHS long-term planning aspires to deliver healthcare that is more personalised and patient centred, more focused on prevention, and more likely to be delivered in the community, out of hospital. Our Hub will contribute to this through developing mathematical and statistical tools needed to inform clinical decision making on a patient-by-patient basis. The basis of this approach is quantitative patient-specific mathematical models, the parameters of which are determined directly from individual patient's data.
As an example of this, our recent research in the field of mental health has revealed that movement signatures could be used to distinguish between healthy subjects and patients with schizophrenia. This hypothesis was tested in a cohort of people with schizophrenia and we developed a quantitative analysis pipe line allowing for classification of individuals as healthy or patients. The features used for classification involving data-driven models of individual movement properties as well as measures of coordination with a virtual partner were proposed as a novel biomarker of social phobias. To validate this in an NHS setting, we have recently carried out a feasibility study in collaboration with the early intervention for psychosis teams in Devon Partnership Mental Health Trust. The success of this study could significantly advance the early detection of psychosis by enabling diagnosis using novel markers that are easily measured and analysed and improve accuracy of diagnosis.
Indeed, personalised quantitative models hold the promise for transforming prognosis, diagnosis and treatment of a wide range of clinical conditions. For example, in diabetes where a range of treatment options exist, identifying the optimal medication, and the pattern of its delivery, based upon the profile of the individual will enable us to maximise efficacy, whilst minimising unwanted side effects.
Planned Impact
The Hub will serve as a focal point that brings together a wide-range of end users with the most appropriate for their needs academic expertise available at the University of Exeter in order to deliver our impact strategy. We will engage directly with clinical partners, the wider research community and industry, as well as outreach to patient and the wider public, and via capacity building on the interface of mathematics and healthcare. The activities in WP3 will in particular provide mechanisms for user engagement driven by user needs and priorities that align with the Hub Research Themes.
* NHS: The Hub will create impact for the NHS in terms improved delivery of services that is of interest to health sector managers and policy makers. Quantitative Modelling (QM) in Healthcare involving dynamic models of complex disease along with uncertainty quantification for personalised prognosis and diagnosis could result in significant cost savings to the NHS. The novelty of the Hub is that it endeavours to open new avenues of application of QM in healthcare for much wider range of problems and applications.
* Clinicians: The Hub will to create impact for clinicians by collaborative development of tools that use of quantitative models for personalising diagnosis and predicting treatment responses or outcomes. Multiple health conditions and healthcare providers could benefit from this approach, via applying cutting edge research in a clinical setting that may lead to earlier, more cost effective and more reliable diagnosis. The Hub will promote this through its network of basic researchers and clinical partners through via WP3. For example, researchers at Exeter and clinicians from RD&E are interested in quantifying the link between personal interventions and ongoing metabolic (e.g. microbiomes and endocrine function) health based on monitoring key bio indicators such as lipids or cholesterol.
* Patients: The Hub aims to develop quantitative tools for health management at personalised level. We will pursue active engagement with patients' groups such as the Lived Experience Group at the Mood Disorder Centre. Specifically we will work with patient representatives to develop appropriate public involvement and engagement activities by providing a fresh perspective and encourage researchers to think about the societal problems their research is addressing; commenting on language used in public facing communications; helping prepare for public presentations or outreach events.
* Industry: There is a real potential to incorporate quantitative models including uncertainty quantification into both new and existing healthcare technologies, i.e. into technology and tools for areas such as mental health management. There is further potential for the quantitative models and associated uncertainty quantification tools developed within the Hub to deliver precision medicine technologies for metabolic health and novel antimicrobial therapies.
* Public outreach: Healthcare is an issue that affects all of us at some time as patients or carers and unsurprisingly there is a high level of public interest and newsworthiness of new developments that may revolutionise aspects of healthcare. What is less familiar is the role of mathematics in this, and the Hub will provide a forum to educate on aspects of this.
* Impact via research team training: The Hub will support the training of two postdoctoral researchers and at least 4 PhD students through joint University and industry support. This will include both generic and specific training at the core of mathematics for healthcare. In the longer term this approach will increase the number of highly trained researchers working on the interface between mathematics and healthcare, and so build capacity to ensure that an increasingly data-rich area of healthcare science will pull through to impacts.
* NHS: The Hub will create impact for the NHS in terms improved delivery of services that is of interest to health sector managers and policy makers. Quantitative Modelling (QM) in Healthcare involving dynamic models of complex disease along with uncertainty quantification for personalised prognosis and diagnosis could result in significant cost savings to the NHS. The novelty of the Hub is that it endeavours to open new avenues of application of QM in healthcare for much wider range of problems and applications.
* Clinicians: The Hub will to create impact for clinicians by collaborative development of tools that use of quantitative models for personalising diagnosis and predicting treatment responses or outcomes. Multiple health conditions and healthcare providers could benefit from this approach, via applying cutting edge research in a clinical setting that may lead to earlier, more cost effective and more reliable diagnosis. The Hub will promote this through its network of basic researchers and clinical partners through via WP3. For example, researchers at Exeter and clinicians from RD&E are interested in quantifying the link between personal interventions and ongoing metabolic (e.g. microbiomes and endocrine function) health based on monitoring key bio indicators such as lipids or cholesterol.
* Patients: The Hub aims to develop quantitative tools for health management at personalised level. We will pursue active engagement with patients' groups such as the Lived Experience Group at the Mood Disorder Centre. Specifically we will work with patient representatives to develop appropriate public involvement and engagement activities by providing a fresh perspective and encourage researchers to think about the societal problems their research is addressing; commenting on language used in public facing communications; helping prepare for public presentations or outreach events.
* Industry: There is a real potential to incorporate quantitative models including uncertainty quantification into both new and existing healthcare technologies, i.e. into technology and tools for areas such as mental health management. There is further potential for the quantitative models and associated uncertainty quantification tools developed within the Hub to deliver precision medicine technologies for metabolic health and novel antimicrobial therapies.
* Public outreach: Healthcare is an issue that affects all of us at some time as patients or carers and unsurprisingly there is a high level of public interest and newsworthiness of new developments that may revolutionise aspects of healthcare. What is less familiar is the role of mathematics in this, and the Hub will provide a forum to educate on aspects of this.
* Impact via research team training: The Hub will support the training of two postdoctoral researchers and at least 4 PhD students through joint University and industry support. This will include both generic and specific training at the core of mathematics for healthcare. In the longer term this approach will increase the number of highly trained researchers working on the interface between mathematics and healthcare, and so build capacity to ensure that an increasingly data-rich area of healthcare science will pull through to impacts.
Organisations
- UNIVERSITY OF EXETER (Lead Research Organisation)
- Singer Instruments (Collaboration)
- University of Sydney (Collaboration, Project Partner)
- IMPERIAL COLLEGE LONDON (Collaboration)
- Nanyang Technological University (Collaboration, Project Partner)
- ROYAL DEVON AND EXETER NHS FOUNDATION TRUST (Collaboration)
- Free University of Amsterdam (Collaboration)
- University of Exeter (Collaboration)
- Medicines Discovery Catapult (Collaboration)
- Certus Technology (Collaboration)
- University of Bristol (Collaboration)
- North Bristol NHS Trust (Project Partner)
- Brain in Hand (Project Partner)
- Royal Devon University Healthcare NHS Foundation Trust (Project Partner)
- Devon Partnership NHS Trust (Project Partner)
- First Databank Europe Ltd (Project Partner)
- IP Pragmatics (Project Partner)
- The Alan Turing Institute (Project Partner)
- Brainbow Limited (Project Partner)
- Ludger Ltd (Project Partner)
- SW Academic Health Science Network (Project Partner)
- Somerset NHS Foundation Trust (Project Partner)
- Certus Technology Associates Ltd (Project Partner)
Publications
Voliotis M
(2022)
Mathematical models in GnRH research.
in Journal of neuroendocrinology
Madapoosi SS
(2022)
Lung Microbiota and Metabolites Collectively Associate with Clinical Outcomes in Milder Stage Chronic Obstructive Pulmonary Disease.
in American journal of respiratory and critical care medicine
Voliotis M
(2022)
LBMON233 Hormonebayes: A Novel Bayesian Toolbox For Analysis Of Pulsatile Hormone Dynamics
in Journal of the Endocrine Society
Chaffey JR
(2021)
Investigation of the utility of the 1.1B4 cell as a model human beta cell line for study of persistent enteroviral infection.
in Scientific reports
Mac Aogáin M
(2021)
Integrative microbiomics in bronchiectasis exacerbations.
in Nature medicine
Saghafi S
(2024)
Inferring Parameters of Pyramidal Neuron Excitability in Mouse Models of Alzheimer's Disease Using Biophysical Modeling and Deep Learning.
in Bulletin of mathematical biology
Bain JM
(2021)
Immune cells fold and damage fungal hyphae.
in Proceedings of the National Academy of Sciences of the United States of America
| Description | Key findings related to the Hub's Research themes: Theme 1: Uncertainty quantification (UQ) for computational modelling in biomedicine and healthcare. We have developed a framework that allows for quantification of uncertainty in modelling patients trajectories (disease progression) in chronic disease such as Duchenne muscular dystrophy (DMD) and lung diseases (COPD, bronchiectasis). The results from this research are being explored in terms of informing therapy and clinical trials design. Theme 2: Reversibility and Resilience(RR): A Mathematical Approach to Evolving Microbial Communities. A framework for modelling combination therapy for infectious disease is being developed including phage therapy. This has implications for precision medicine in this space. |
| Exploitation Route | Clinical decision making, clinical trials secondary analysis and design. |
| Sectors | Digital/Communication/Information Technologies (including Software) Healthcare Pharmaceuticals and Medical Biotechnology |
| Description | Computer models of biological systems have demonstrated their utility in elucidating complex diseases, potentially aiding clinical decisions ranging from crafting personalised healthcare solutions for patients with debilitating health conditions to conducting in silico clinical trials. However, integrating computer models into clinical settings must be executed in a robust, transparent, and standardized manner, accounting for various sources of uncertainty. Uncertainty Quantification (UQ) is a discipline that revolves around quantifying and addressing uncertainties in mathematical and computer models describing real-world processes, with engineering and physical models being extensively studied in this field. Healthcare and biological systems models present unique challenges distinct from the complex computer models traditionally analysed in UQ. Therefore, quantifying uncertainty in healthcare models presents distinct challenges. Our work has focussed on tackling UQ challenges for mechanistic healthcare models by bringing together applied mathematicians, statisticians, and healthcare modellers and raising awareness of suitable approaches and techniques in this space. |
| First Year Of Impact | 2023 |
| Sector | Healthcare |
| Description | Online course in computer programming |
| Geographic Reach | National |
| Policy Influence Type | Influenced training of practitioners or researchers |
| Description | CABBAGE: Comprehensive Assessment of Bacterial-Based AMR prediction from Genotypes |
| Amount | £914,298 (GBP) |
| Funding ID | MR/Z505547/1 |
| Organisation | Medical Research Council (MRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 01/2025 |
| End | 12/2027 |
| Description | Determining the membrane circadian clock across evolution |
| Amount | £545,754 (GBP) |
| Funding ID | BB/W000865/1 |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 05/2022 |
| End | 08/2025 |
| Description | LEAP (Leadership Engagement Acceleration & Partnership) - an EPSRC Digital Health Hub |
| Amount | £3,290,617 (GBP) |
| Funding ID | EP/X031349/1 |
| Organisation | Engineering and Physical Sciences Research Council (EPSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2023 |
| End | 09/2026 |
| Description | NetClamp: conducting neural network rhythms with mathematics |
| Amount | £201,337 (GBP) |
| Funding ID | EP/V048716/1 |
| Organisation | Engineering and Physical Sciences Research Council (EPSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 05/2021 |
| End | 06/2024 |
| Description | The amygdala, a key upstream regulator of the hypothalamic GnRH pulse generator |
| Amount | £391,816 (GBP) |
| Funding ID | BB/W005883/1 |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 02/2022 |
| End | 01/2025 |
| Description | Uncertainty Quantification at the Exascale (EXA-UQ) |
| Amount | £1,006,031 (GBP) |
| Funding ID | EP/W007886/1 |
| Organisation | Engineering and Physical Sciences Research Council (EPSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 07/2021 |
| End | 08/2024 |
| Description | Understanding molecular accumulation in single cells via microfluidics and omics |
| Amount | £512,141 (GBP) |
| Funding ID | BB/V008021/1 |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 11/2021 |
| End | 04/2024 |
| Title | Additional file 2 of Algorithmic hospital catchment area estimation using label propagation |
| Description | Additional file 2 Supplementary data - surge capacity estimates. A curated data set of estimated acute and ITU bed capacity in the NHS and private hospitals at the start of the pandemic, in England, Wales, and Scotland. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| URL | https://springernature.figshare.com/articles/dataset/Additional_file_2_of_Algorithmic_hospital_catch... |
| Title | Additional file 2 of Algorithmic hospital catchment area estimation using label propagation |
| Description | Additional file 2 Supplementary data - surge capacity estimates. A curated data set of estimated acute and ITU bed capacity in the NHS and private hospitals at the start of the pandemic, in England, Wales, and Scotland. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| URL | https://springernature.figshare.com/articles/dataset/Additional_file_2_of_Algorithmic_hospital_catch... |
| Title | ML/AI-based methodology has been developed to reconcile the policy differences between Europe and the US which has the potential for significant impact in the field of clinical AMR |
| Description | This is because, at least at present, different definitions of antibiotic resistance are in use on different continents which leads to very different clinical treatment policies whereby US-based patients receive higher dosages than European ones and we investigated whether this is warranted, given the available data. As part of this process, we designed a machine-based methodology which is an algorithm that chooses the optimal compromise between US and European policies, given those data. |
| Type Of Material | Data analysis technique |
| Year Produced | 2024 |
| Provided To Others? | No |
| Impact | The goal now is to have this peer reviewed and to have either this methodology, or some modification of it adopted by AMR policymakers as part of their data analysis pipelines. |
| Title | The antibiotic dosage of fastest resistance evolution: gene amplifications underpinning the inverted-U (dataset) |
| Description | This is the dataset used for the Reding et al. (2021) article "The Antibiotic Dosage of Fastest Resistance Evolution: gene amplifications underpinning the inverted-U" published in Molecular Biology and Evolution. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2021 |
| Provided To Others? | Yes |
| Impact | To early to tell |
| URL | https://ore.exeter.ac.uk/repository/handle/10871/125077 |
| Title | hormoneBayes |
| Description | hormoneBayes is a novel open-access Bayesian framework that can be easily applied to reliably analyze serial LH measurements to assess LH pulsatility. The framework utilizes parsimonious models to simulate hypothalamic signals that drive LH dynamics, together with state-of-the-art (sequential) Monte-Carlo methods to infer key parameters and latent hypothalamic dynamics. We show that this method provides estimates for key pulse parameters including inter-pulse interval, secretion and clearance rates and identifies LH pulses in line with the current gold-standard deconvolution method. We show that these parameters can distinguish LH pulsatility in different clinical contexts including in reproductive health and disease in men and women (e.g., healthy men, healthy women before and after menopause, women with HA or PCOS). A further advantage of hormoneBayes is that our mathematical approach provides a quantified estimation of uncertainty. Our framework will complement methods enabling real-time in-vivo hormone monitoring and therefore has the potential to assist translation of personalized, data-driven, clinical care of patients presenting with conditions of reproductive hormone dysfunction. |
| Type Of Material | Computer model/algorithm |
| Year Produced | 2022 |
| Provided To Others? | Yes |
| Impact | Too early to say. |
| URL | https://git.exeter.ac.uk/mv286/hormonebayes |
| Description | Advisory Board for a Marie Curie doctoral training network "Beyond the Edge" |
| Organisation | Free University of Amsterdam |
| Department | VU Foundation |
| Country | Netherlands |
| Sector | Charity/Non Profit |
| PI Contribution | Co-investigator Pete Ashwin represents the Hub on advisory board for a Marie Curie doctoral training network "Beyond the Edge" which looks at multiway coupling in biological and other network applications. |
| Collaborator Contribution | Advice given from Prof Peter Ashwin. |
| Impact | Nothing further to report at this stage. |
| Start Year | 2024 |
| Description | Anxiety, PTSD, psychosis modelling |
| Organisation | University of Exeter |
| Department | Mood Disorders Centre Exeter |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Modelling and analysis of EEG, movement and physiological data |
| Collaborator Contribution | Providing data and domain expert knowledge |
| Impact | Joint MSc and PhD students supervision, collaboration on EPSRC Impact Acceleration award, involving clinical psychology, data science and modelling |
| Start Year | 2019 |
| Description | Certus Technolgy |
| Organisation | Certus Technology |
| Country | United Kingdom |
| Sector | Private |
| PI Contribution | Modelling patients disease trajectory |
| Collaborator Contribution | Data |
| Impact | Modelling framework and draft manuscript |
| Start Year | 2021 |
| Description | EPSRC award with Singer Instruments |
| Organisation | Singer Instruments |
| Country | United Kingdom |
| Sector | Private |
| PI Contribution | This EPSRC award has helped strengthen a collaboration between Prof Beardmore (REB) and Singer Instruments. |
| Collaborator Contribution | Singer Instruments a commercial SME based in N Somerset, will build and trial a laboratory device designed by REB. Singer will also build a new capability into one of their existing commercial devices that will be tested in the lab of REB with the expectation that this device can generate microbial phenotypes at an unprecedentedly high throughput. The latter is needed so that if, for example, a large library of genetically altered microbes consisting of (say) 10,000 strains is exposed to an antibiotic, in order to understand the interactions between genes and that antibiotic, this necessitates at least 20,000 microbial growth assays are implemented. This can be done with spectrophotometers, but only very slowly, typically at 384 strains per experiment or else in banks of spectrophotometers that can cost £10k - 20k each. In this case, a large grid consisting of thousands of microbes is pinned to agar and this is imaged during growth conditions and data are extracted from those images. This provides the necessary data in a fraction of the time in comparison to using spectrophotometers and the expectation is that this concept will have strong commercial potential. This prototype device will be trialled as part of Prof Elaine Bignell's MRC programme grant entitled "FAILSAFE: Fungal AMR Innovations for LMICS: Solutions and Access For Everyone". |
| Impact | The output thus far is a working prototype trialled in the lab of REB but more work is needed to reach a commercialisation stage and follow-on UKRI funding will be sought as of March 2025. |
| Start Year | 2024 |
| Description | LEAP Digital Health Hub |
| Organisation | University of Bristol |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Providing support for training as part of the LEAP Digital Health Hub. |
| Collaborator Contribution | Offering research funding, the LEAP Digital Health Hub is cultivating a multidisciplinary, entrepreneurial, cross-sector Digital Health community across the South West and South Wales. |
| Impact | Early stage, no outputs yet |
| Start Year | 2023 |
| Description | MRC funded partnership |
| Organisation | Imperial College London |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | A new MRC-funded partnership has begun in collaboration with Dr Leonid Chindelevitch of Imperial College London. His lab is also the destination of former EPSRC Hub member Dr Emily Dickens (nee Wood) who will be employed on this grant. The purpose of this award is to use modern data analytic techniques, mathematical modelling and bespoke genomic and phenotypic datasets on bacterial evolution to understand the potential for new interactions between genes, genomes and antibiotic resistance. Dr Chindelevitch has amassed one of the world's largest databases that records clinical phenotypes, infection metadata and genomic data within one resource and our goal is to probe both this and other databases curated by global organisations and healthcare bodies that include Pfizer, EUCAST and CLSI to seek novel interactions between antibiotics and genomes. This will be implemented primarily within Gram negative bacteria where statistical power permits, although data is also held on other organisms too. |
| Collaborator Contribution | Please see above. |
| Impact | Nothing to report to date. |
| Start Year | 2024 |
| Description | Medicines Discovery Catapult (MDC) |
| Organisation | Medicines Discovery Catapult |
| Country | United Kingdom |
| Sector | Private |
| PI Contribution | Industrial Seed Corn Funding to develop a 'Translational Roadmap' with the Medicines Discovery Catapult The aim of this award is to accelerate the translation of promising medicines discovery research underway at the University of Exeter. This call is being proposed for working jointly with the Medicines Discovery Catapult (MDC), an orgranisation dedicated to accelerating drug discovery in the UK, as part of a new strategic partnership between the two institutions. |
| Collaborator Contribution | The MDC's VR&D team has substantial drug discovery expertise, and its members have held external innovation roles in large pharmaceutical organisations. In brief, a translational roadmap could broadly consist of (but is not limited to) the following elements: - Application of industrial rigour to review all data associated with the project - Planning of the most efficient/effective line of site to clinic, plausibly with costs & routes to delivery - Understanding of regulatory considerations - Understanding of the market and therapeutics currently in development - Understanding the suitability of the therapeutic to the patient population in question |
| Impact | Joint projects |
| Start Year | 2020 |
| Description | Microbiomes in respiratory disease |
| Organisation | Nanyang Technological University |
| Country | Singapore |
| Sector | Academic/University |
| PI Contribution | Developing integrative macrobiotics framework for respiratory disease stratification and AMR |
| Collaborator Contribution | Domain expert knowledge and data |
| Impact | A number of publications in high profile and clinical journals, involving modelling, data analytics, bioinformatics and clinical expertise |
| Start Year | 2020 |
| Description | NHMRC (Australia)-funded partnership |
| Organisation | University of Sydney |
| Country | Australia |
| Sector | Academic/University |
| PI Contribution | A new NHMRC (Australia)-funded partnership has begun in collaboration with Dr Carola Venturini, Westmead Hospital, Sydney (working in the lab of EPSRC hub grant partner Prof Jon Iredell) on the design of clinical phage cocktails that are used to fight drug-resistant infections. This work will consider ways of undertaking high-throughput laboratory assays whereby phage can be assayed to understand their in vitro properties in such a way that their success in vivo (in patients) can be predicted. There is an analogous and very well-trodden pathway for this in terms of antibiotics but the success of that pathways is limited, at best, and the hope here is to use tools form modern data science and mathematical modelling to ensure the problems that arise in terms of the predictions of antibiotic efficacy are not replicated in terms of the application of phage to patients. Dr Venturini will work as a self-funded research fellow support by Profs Iredell, Beardmore and a global network of other scientists, including Drs Amy Cain, Alicia Fajardo Lubian (Sydney) and Stefanie Barbirz (Berlin). |
| Collaborator Contribution | Scientific research support |
| Impact | Nothing to report to date. |
| Start Year | 2024 |
| Description | Royal Devon University Healthcare NHS Foundation Trust |
| Organisation | Royal Devon and Exeter NHS Foundation Trust |
| Country | United Kingdom |
| Sector | Public |
| PI Contribution | Prof Krasimira Tsaneva-Atanasova is a Co-lead on the AI and Data Science theme as part of the NIHR HealthTech Research Centre on "Diagnostics, rehabilitation and frailty" |
| Collaborator Contribution | Data provision and domain (clinical) expertise |
| Impact | Early stages, not applicable |
| Start Year | 2024 |
| Title | A programme of software development outside the remit of the original research proposal was started during the award period of this grant that began as a response to understanding the links between movement disorders and the potential for sport as therapy |
| Description | The concept was that sufferers of dyspraxia could see improvement in some of their symptoms from skiing and there is evidence of clinical referrals in the UK ski community to support this idea. Lacking, however, is quantitative evidence and so software tools were conceived to try and meet this research need. During a period of conception and subsequent testing, it became clear that the need for ski-related technologies also extends to the near-elite and elite levels and so a series of further concepts have been designed to aid both the novice and elite skiers in their development. Contact has been made with elite performance teams at the Olympic level and conversations have taken place with biomedical practitioners in the UK to try and understand where most progress can be made against the objective of measuring progress when learning skiing as a new physical skill. This programme is underway but far from complete and the expectation is that this programme of software development, one that whose details we omit but which strongly leverages the sensors available on a modern mobile phone, will underpin both biomechanics research and have spinout potential. |
| Type Of Technology | Software |
| Year Produced | 2024 |
| Impact | Please see above. |
| Title | Dynamic Clamp Controller |
| Description | Dynamic Clamp Controller is a lightweight GUI for uploading parameters to the excellent Arduino and Teensy-based dynamic clamp (https://www.eneuro.org/content/4/5/ENEURO.0250-17.2017). |
| Type Of Technology | Software |
| Year Produced | 2019 |
| Open Source License? | Yes |
| Impact | Too early to say |
| URL | https://github.com/kyle-wedgwood/DynamicClampController |
| Title | hormoneBayes |
| Description | hormoneBayes is a novel open-access Bayesian framework that can be easily applied to reliably analyze serial LH measurements to assess LH pulsatility. The framework utilizes parsimonious models to simulate hypothalamic signals that drive LH dynamics, together with state-of-the-art (sequential) Monte-Carlo methods to infer key parameters and latent hypothalamic dynamics. We show that this method provides estimates for key pulse parameters including inter-pulse interval, secretion and clearance rates and identifies LH pulses in line with the current gold-standard deconvolution method. We show that these parameters can distinguish LH pulsatility in different clinical contexts including in reproductive health and disease in men and women (e.g., healthy men, healthy women before and after menopause, women with HA or PCOS). A further advantage of hormoneBayes is that our mathematical approach provides a quantified estimation of uncertainty. Our framework will complement methods enabling real-time in-vivo hormone monitoring and therefore has the potential to assist translation of personalized, data-driven, clinical care of patients presenting with conditions of reproductive hormone dysfunction. |
| Type Of Technology | Software |
| Year Produced | 2022 |
| Open Source License? | Yes |
| Impact | Too early to say. |
| URL | https://git.exeter.ac.uk/mv286/hormonebayes |
| Description | Early career research day |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Other audiences |
| Results and Impact | The event began with a 'marshmallow challenge' icebreaker event, talks were given by early career researchers based in the Hub for Quantitative Modelling (Exeter) and the CHIMERA Hub (UCL), covering a range of research topics from biomechanical modelling of the human lung to antibiotic resistance. A poster session was hosted during the networking lunch, featuring posters from researchers across various institutions, including the University of Exeter, UCL, the University of Nottingham and the University of Glasgow. The event finished with an interactive Q&A session |
| Year(s) Of Engagement Activity | 2024 |
| Description | Exeter Summit - Building Better Together, interdisciplinary Q&A panel session on Planetary Health and the recovery from COVID-19 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Schools |
| Results and Impact | Exeter Summit - Building Better Together, interdisciplinary Q&A panel session on Planetary Health and the recovery from COVID-19 |
| Year(s) Of Engagement Activity | 2021 |
| Description | From Enigma to the Programming of Life: Alan Turing's achievements explored in a discussion between Dr Kyle Wedgwood and Sir Dermot Turing. |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Public/other audiences |
| Results and Impact | This public lecture, which is hosted by the EPSRC Hub for Quantitative Modelling in Healthcare, is intended to provide a platform for people to separate truth from fiction in the story of Alan Turing's scientific accomplishments. Guest speaker, Sir Dermot Turing will be joined by Dr Kyle Wedgwood (lecturer in the Living Systems Institute) to discuss and explore the scientific achievements of Alan Turing across his career. Starting from the efforts to "break" the Enigma machine, Dermot will decipher the real story of Alan Turing's work. Over the course of the evening, Dermot and Kyle will reflect on the impact of Alan Turing's early machines on the development of modern computers, and later, on his contribution to answering fundamental questions about life and the natural world. |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.eventbrite.co.uk/e/public-lecture-alan-turing-coding-for-life-tickets-254524237847 |
| Description | Fungicast podcast. Neil Gow joins Sarah Campbell to explore the potency, power and potential of fungi with Merlin Sheldrake |
| Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Public/other audiences |
| Results and Impact | Fungicast podcast. Neil Gow joins Sarah Campbell to explore the potency, power and potential of fungi with Merlin Sheldrake |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://soundcloud.com/user-621263983/fungicast-episode-1-with-merlin-sheldrake-and-neil-gow |
| Description | Futures 2021 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Public/other audiences |
| Results and Impact | MakeTank, Paris Street, Exeter by Kyle Wedgwood |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://www.maketank.org.uk |
| Description | Half day scientific meeting to strengthen the collaborations between research groups within the university "Mathematical Modelling meets Medical Mycology". |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Study participants or study members |
| Results and Impact | One of the primary objectives of this collaborative gathering was to showcase ongoing research projects within both domains. Attendees were afforded the opportunity to delve into the cutting-edge work being undertaken by experts in mathematical modelling and medical mycology. These presentations not only shed light on the latest advancements but also paved the way for potential cross-disciplinary connections. |
| Year(s) Of Engagement Activity | 2022 |
| Description | How was it done? Breaking the Enigma cipher - maths, not magic with Dermot Turing. |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Undergraduate students |
| Results and Impact | The Enigma machine cipher was famously broken at Bletchley Park, but for many years GCHQ did not want anyone to know how it was actually done. Beginning with the Enigma machine itself, and its illusory security features, this presentation travels across the different attacks on Enigma from the earliest pre-war attempts to the later sophisticated machine decryption methods. These attacks drew on group theory and the post-Hilbert ideas of incomplete logical systems as well as more traditional cryptanalytical approaches based on language structure. Once the theory was established, creating a fast, workable system for finding Enigma keys required an engineering solution, using binary logic to eliminate wrong settings - a radically new approach leading to the ascendancy of digital computing. Dermot Turing is the acclaimed author of Prof, a biography of his famous uncle, The Story of Computing, and most recently X, Y and Z - the real story of how Enigma was broken. |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.exeter.ac.uk/news/events/details/index.php?event=11977 |
| Description | Image analysis workshops |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Workshops were delivered on the topic of image analysis. The first edition of the workshop had two dates 2/5/23 and 10/5/23. The second edition was on 29/11/2024. |
| Year(s) Of Engagement Activity | 2023,2024 |
| URL | https://image-analysis-workshop.github.io/index.html |
| Description | Killer Fungus talk, British Science Festival |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Public/other audiences |
| Results and Impact | Killer Fungus talk, British Science Festival by Neil Gow |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://britishsciencefestival.seetickets.com/content/ticket-options |
| Description | Lorentz Center workshop |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Other audiences |
| Results and Impact | Uncertainty Quantification for Healthcare and Biological Systems Monday 17 till Friday 21 April 2023 Lorentz Center@Snellius The Netherlands Computer models of biological systems have proven to be useful in underpinning complex diseases with the potential to support clinical decisions from designing the personalised healthcare solutions for patients with deliberating health problems to performing in silico clinical trials. However, incorporating computer models into the clinical settings must be done in a robust, transparent and formalised way with a proper consideration of the various sources of uncertainty. Uncertainty Quantification is a field that focuses around quantifying and taking account of uncertainties for mathematical and computer models that describe real-world processes with engineering and physical models being well represented in the field. Healthcare and biological systems models differ significantly from the complex computer models traditionally considered in UQ, and therefore quantifying the uncertainty in healthcare models can pose very different challenges. The aim of this workshop is to identify UQ challenges for mechanistic healthcare models by bringing applied mathematicians, statisticians and healthcare modelers together. |
| Year(s) Of Engagement Activity | 2023 |
| URL | https://www.lorentzcenter.nl/uncertainty-quantification-for-healthcare-and-biological-systems.html |
| Description | Mathematical Modelling meets Medical Mycology |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Study participants or study members |
| Results and Impact | Mathematical Modelling meets Medical Mycology engagement event organised by one of the Hub's fellows - Nicolás Verschueren van Rees. The event took place on 11 November 2022 in Reed Hall, University of Exeter, UK |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.exeter.ac.uk/news/events/details/index.php?event=12433 |
| Description | Mathematics in Life Sciences workshop: New developments in pattern formation in biological systems, University of Exeter, 14-15th June 2022. |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Study participants or study members |
| Results and Impact | The meeting will focus on "New developments in pattern formation in biological systems" and will take place on the 14-15th June 2022 from 13:30 (14th June) to 14:00pm (15th June) in the Newman Red Lecture Theatre in the Peter Chalk Centre, at the University of Exeter (Streatham Campus). |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://mils.ghost.io/programme-mils-meeting-on-pattern-formation/ |
| Description | MiLS meeting on "Linking Mathematics, Experiments and Data" 8th-9th March 2023, University of Exeter |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | The meeting will focus on "Linking mathematics, experiments and data" and will take place on the 8-9th March 2023 from 11:30 (8th March) to 13:30pm (9th March) in the Harrison Building at the University of Exeter (Streatham Campus). |
| Year(s) Of Engagement Activity | 2023 |
| URL | https://mils.ghost.io/hybrid/ |
| Description | Projects with Exeter Mathematics School |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Schools |
| Results and Impact | Projects with Exeter Mathematics School |
| Year(s) Of Engagement Activity | 2023,2024 |
| Description | QAMR meeting |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Other audiences |
| Results and Impact | A meeting called QAMR2025 will run in April, 2025, funded by this EPSRC hub grant, which has the goal of assembling a variety of users and academic researchers to discuss progress in modern Data Science, mathematics and AI applied to antimicrobial resistance (AMR). This meeting will be attended by Pfizer who help curate a large clinical database called "ATLAS" on patient infections and ATLAS has played a large role in the research programmes of researchers globally for around 5 years. The meeting will also be attended by around 50 clinicians and research scientists, including ones from DSTL, who will meet to discuss the state of the art in terms of clinical data collection and analysis for AMR. |
| Year(s) Of Engagement Activity | 2025 |
| URL | https://rebear217.github.io/meetings.html |
| Description | School visit |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Schools |
| Results and Impact | Title: "Mathematical models of hormonal rhythms" seminar by Dr Margaritis Voliotis Date: 04/03/2022 Venue: South Gloucester and Strout College (SGS), STEM Seminar series |
| Year(s) Of Engagement Activity | 2022 |
| Description | Screening of 'Our Body is a Planet' followed by discussion between artist and Neil Gow |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Public/other audiences |
| Results and Impact | Screening of 'Our Body is a Planet' followed by discussion between artist and Neil Gow in Exeter Phoenix |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://exeterphoenix.org.uk/events/our-body-is-a-plant/ |
| Description | Soundart Radio series "Everybody Counts", 24th July 2023 |
| Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Media (as a channel to the public) |
| Results and Impact | Soundart Radio series "Everybody Counts", 24th July 2023 |
| Year(s) Of Engagement Activity | 2023 |
| URL | https://www.mixcloud.com/Soundart_Radio/everybody-counts-edition-04-240723/ |
| Description | THE FUTURE OF AI |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Public/other audiences |
| Results and Impact | THE FUTURE OF AI AI is at a crucial point: in this event discover its radiant possibilities as well as the possible changes to all our lives. A world leading panel of experts from business, finance, media and academia discuss the eye-opening scenarios of our future. There is a particular focus on how AI is used to make models for our decisions, regulate our systems, and reduce the impact of uncertainty to solve real-world problems Which areas of our lives will have the most rapid changes? What does this tell us about what it means to be human? |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://exeterphoenix.org.uk/events/the-future-of-ai/ |
| Description | Talk at Chumleigh college on research in mathematics, 28th February 2023. |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Schools |
| Results and Impact | Talk at Chumleigh college on research in mathematics, 28th February 2023. |
| Year(s) Of Engagement Activity | 2023 |
