Thomas Kirk MEng DPhil

Research Experience

2017 - 2021: DPhil, Anatomically informed Bayesian inference for physiological imaging
Supervised by Professor Michael Chappell, funded by the Bellhouse Scholarship for Biomedical Engineering at the University of Oxford
- Developed a suite of computational tools for surface analysis of neuroimaging data
- Developed a framework for combined volumetric and surface-based Bayesian inference of arterial spin labelling data
- Work led to two publications, one patent and numerous conference posters; further publications are in preparation
2020: Design and development of an emergency Covid-19 ventilator (OxVent)
- Joint effort between the University of Oxford and Smith & Nephew to develop an emergency device; the UK government ordered 6000 units
- Responsible for overall system integration and calibration
- Authored multiple technical documents for the UK healthcare regulator (MHRA)
- An overview of this project has been published in the Lancet eBioMedicine
2016 - 2017: MEng, Perfusion quantification in the clinic
Supervised by Professor Michael Chappell
- Developed a clinical facing app using the MeVisLab platform to simplify and facilitate the use of arterial spin labelling for perfusion measurement

2017 - 2021: DPhil Biomedical Engineering, University of Oxford
2013 - 2017: MEng Engineering, Economics and Management, University of Oxford (First class)

2020: Global Challenge innovation award from the Institute of Engineering and Technology for development of an emergency Covid-19 ventilator (OxVent)
2020: OHBM trainee stipend for conference attendance
2020: Guarantors of Brain travel award
2019, 2020: ISMRM trainee stipends for conference attendance
2017: Bellhouse Scholarship in Biomedical Engineering, covering all fees and living costs at the University of Oxford
2012: Arkwright scholarship for engineering

T. Kirk and M. Chappell, Partial volume estimation from surface reconstructions, filed April 2020, pending with application number 63013712.

2024 T. Kirk, …, M. Chappell, Arterial spin labelling perfusion MRI analysis for the Human Connectome Project Lifespan Ageing and Development studies, bioRxiv, doi
2023 M. Chappell, T. Kirk, …, M. Woolrich, BASIL: A toolbox for perfusion quantification using arterial spin labelling, Imaging Neuroscience, doi
2023 T. Kirk, M. Craig and M. Chappell, Unified surface and volumetric inference on functional imaging data, Medical Image Computing and Computer Assisted Intervention, doi
2022 T. Kirk, A. Barker, A. Bodossian and R. Staruch, Vaximap: route optimisation for housebound vaccination, Nature Digital Medicine, doi
2022 P. Clement, …, T. Kirk, …, H. Mutsaerts, ASL-BIDS, the brain imaging data structure extension for arterial spin labeling, Nature Scientific Data, doi
2022 R. Beale, …, F. Formenti & T. Kirk, OxVent: Design and evaluation of a rapidly-manufactured Covid-19 ventilator, The Lancet eBioMedicine, doi
2021 T. Kirk, M. Craig and M. Chappell, Unified surface and volumetric projection of physiological imaging data, bioRxiv, doi
2019 T. Kirk, T. Coalson, M. Craig and M. Chappell, Toblerone: surface-based partial volume estimation, IEEE Transactions on Medical Imaging, doi

2023 T. Kirk, M. Craig and M. Chappell, Unified surface and volumetric inference on functional imaging data, MICCAI oral presentation
2020 T. Kirk, F. Kennedy McConnell, D. Ivanov, S. Kashyap, M. Craig and M. Chappell, Partial volume effect correction of arterial spin labelling data using surface segmentations, ISMRM poster
2020 F. Kennedy McConnell, J. Toner, T. Kirk, M. Craig, A. Segerdahl, M. Harms and M. Chappell, Estimation of cortical perfusion from arterial spin labelling data on the cortical surface, ISMSM poster
2020 S. Kashyap, R. Haast, T. Kirk, A. Vu, S. Kurban, C. Wiggins, A. Roebroeck, A. Khan, D. Feinberg, B. Poser, D. Ivanov The impact of B1+ on the optimisation of high-resolution ASL acquisitions at 7T, ISMRM poster
2019 T. Kirk, T. Coalson, F. Kennedy McConnell and M. Chappell, Toblerone: surface-based partial volume estimation, OHBM poster
2019 T. Kirk, T. Coalson, F. Kennedy McConnell and M. Chappell, Toblerone: surface-based partial volume estimation, ISMRM poster