Our Publications

2025

• Improving ALS detection and cognitive impairment stratification with attention-enhanced deep learning models. Xia, Yuqing and Gregory, Jenna M and Waldron, Fergal M and Spence, Holly and Vallejo, Marta Sci Rep 15, 7045, 2025
• Deep learning and genome-wide association meta-analyses of bone marrow adiposity in the UK Biobank. Xu, W., Mesa-Eguiagaray, I., Morris, D.M., Wang, C., Gray, C.D., Sjöström, S., Papanastasiou, G., Badr, S., Paccou, J., Li, X. and Timmers, P.R Nature Communications, 16(1), p.99, 2025
• Self-Supervised Learning for Pre-training Capsule Networks: Overcoming Medical Imaging Dataset Challenges. (Best Paper Award) Elshimy, H., Zantout, H., Lones, M.A. and El Gayar, N. In 9th International Conference on Information Systems Design & Intelligent Applications. Springer International Publishing, 2025

2024

• Deep learning-based virtual H&E staining from label-free autofluorescence lifetime images Qiang Wang, Ahsan R Akram, David A Dorward, Sophie Talas, Basil Monks, Chee Thum, James R Hopgood, Malihe Javidi, Marta Vallejo npj Imaging, 2024
• A novel deep learning method for large-scale analysis of bone marrow adiposity using UK Biobank Dixon MRI data Morris, D.M., Wang, C., Papanastasiou, G., Gray, C.D., Xu, W., Sjöström, S., Badr, S., Paccou, J., Semple, S.I., MacGillivray, T. and Cawthorn, W.P Computational and Structural Biotechnology Journal, 24, pp.89-104, 2024
• Applications of machine learning in time-domain fluorescence lifetime imaging: a review Dorian Gouzou, Ali Taimori, Tarek Haloubi, Neil Finlayson, Qiang Wang, James R Hopgood, Marta Vallejo Methods and Applications in Fluorescence, 2024
• Statistical analysis for the development of a Deep Learning model for classification of images with TDP-43 pathology Muñoz, A., Oliveira, V. and Vallejo, M. medRxiv, 2024
• REFORMS: Consensus-based Recommendations for Machine-learning-based Science Kapoor S, Cantrell EM, Peng K, Pham TH, Bail CA, Gundersen OE, Hofman JM, Hullman J, Lones MA, Malik MM, Nanayakkara P Science Advances, 10(18), p.eadk3452, 2024
• Avoiding common machine learning pitfalls Lones MA Patterns. 11;5(10), 2024
• Forearm Intravenous Detection and Localization for Autonomous Vein Injection Using Contrast-Limited Adaptive Histogram Equalization Algorithm Said, H., Mohamed, S., Shalash, O., Khatab, E., Aman, O., Shaaban, R. and Hesham, M. Applied Sciences, 14(16), p.7115, 2024
• Moving Healthcare AI Support Systems for Visually Detectable Diseases to Constrained Devices Tess Watt, Christos Chrysoulas, Peter J Barclay, Brahim El Boudani, Grigorios Kalliatakis Applied Sciences, 14(24), p.11474, 2024
• Miniaturised and Flexible Patch for Continuous Tremor Monitoring Using Machine Learning Tiantao Jiang, Encarna Micó-Amigo, Abdullah Abdulaziz, Lukas Jurcaga, Marta Vallejo, Sadeque Reza Khan IEEE International Symposium on Medical Measurements and Applications (MeMeA) (pp. 1-6).
• Impact of loss functions on label-free virtual H&E staining Q Wang, JR Hopgood, M Vallejo ICBBT'24: Proceedings of the 2024 16th International Conference on Bioinformatics and Biomedical Technology
• Audio-Aided Learning Framework for Image Classification with Limited Training Images Wu, Qi, Chengjia Wang, Xiaohui Li, Guangxing Wu, Marta Vallejo, and Ruixuan Wang EEE International Conference on Acoustics, Speech and Signal Processing (ICASSP), pp. 4975-4979. IEEE, 2024
• Robotics use in the care and management of people living with Diabetes Mellitus in the community – a scoping review Al Bayrakdar, A., Wojcik, G., Dragone, M., McConnell, A., Charlton, J., & Paterson, R. OSF Storage, 2024

2023

• Is attention all you need in medical image analysis? A review Papanastasiou, G., Dikaios, N., Huang, J., Wang, C. and Yang, G EEE Journal of Biomedical and Health Informatics, 28(3), pp.1398-1411, 2023

2022

• Parkinson’s disease diagnosis using convolutional neural networks and figure-copying tasks
  M Alissa, MA Lones, J Cosgrove, JE Alty, S Jamieson, SL Smith, M Vallejo
  Neural Computing and Applications 34 (2), 1433-1453, 2022
• A layer-level multi-scale architecture for lung cancer classification with fluorescence lifetime imaging endomicroscopy
  Q Wang, JR Hopgood, S Fernandes, N Finlayson, GOS Williams, M Vallejo
  Neural Computing and Applications 34 (21), 18881-18894, 2022
• Deep Learning-Assisted Co-registration of Full-Spectral Autofluorescence Lifetime Microscopic Images with H&E-Stained Histology Images
  Q Wang, S Fernandes, GOS Williams, N Finlayson, AR Akram, K Dhaliwal, M Vallejo
  Communications Biology 5 (1119), 2022
• A brain atlas of synapse protein lifetime across the mouse lifespan
  Bulovaite, E., Qiu, Z., Kratschke, M., Zgraj, A., Fricker, D.G., Tuck, E.J., Gokhale, R., Koniaris, B., Jami, S.A., Merino-Serrais, P. and Husi, E
  Neuron, 110(24), pp.4057-4073, 2022

2021

• Classification of SARS-CoV-2 and non-SARS-CoV-2 using machine learning algorithms
  OP Singh, M Vallejo, IM El-Badawy, A Aysha, J Madhanagopal, et al.
  Computers in Biology and Medicine 136, 104650, 2021
• Evaluation of Recurrent Neural Network Models for Parkinson's Disease Classification Using Drawing Data
  AS AV, MA Lones, SL Smith, M Vallejo
  43rd Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC), 2021
• Multi-Scale Aggregated-Dilation Network for ex-vivo Lung Cancer Detection with Fluorescence Lifetime Imaging Endomicroscopy
  Qiang Wang; James R. Hopgood; Marta Vallejo
  43rd Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC), 2021
• Fluorescence lifetime imaging endomicroscopy-based ex-vivo lung cancer prediction using multi-scale concatenated-dilation convolutional neural networks
  Qiang Wang; James R. Hopgood; Marta Vallejo
  Proceedings Volume 11597, Medical Imaging 2021: Computer-Aided Diagnosis; 115972O, 2021

2020

• A brainwide atlas of synapses across the mouse life span Cizeron, M., Qiu, Z., Koniaris, B., Gokhale, R., Komiyama, N.H., Fransén, E. and Grant, S.G Science, 369(6501), pp.270-275, 2020
• Deep learning in ex-vivo lung cancer discrimination using fluorescence lifetime endomicroscopic images Q Wang, J Hopgood, N Finlayson, G OS Williams, S Fernandes, E Williams, A Akram, K Dhaliwal, M Vallejo 42nd Annual International Conference of Engineering in Medicine & Biology Society (EMBC) (pp. 1891-1894). IEEE, 2020
• Rhythmic haptic cueing using wearable devices as physiotherapy for Huntington's disease: case study Georgiou, T., Islam, R., Holland, S., Van Der Linden, J., Price, B., Mulholland, P. and Perry, A. JMIR Rehabilitation and Assistive Technologies, 7(2), p.e18589, 2020
• Rhythmic haptic cueing for gait rehabilitation of people with hemiparesis: quantitative gait study Georgiou, T., Holland, S. and van der Linden, J. JMIR Biomedical Engineering, 5(1), p.e18649, 2020
• Small robots with big tasks: A proof of concept implementation using a miro for fall alert Georgiou T, Singh K, Baillie L, Broz F In Companion of the 2020 ACM/IEEE International Conference on Human-Robot Interaction (pp. 206-208), 2020
• Applying the participatory design workshop method to explore how socially assistive robots could assist stroke survivors Georgiou, T., Baillie, L., Ross, M.K. and Broz, F. In Companion of the 2020 ACM/IEEE International Conference on Human-Robot Interaction (pp. 203-205)., 2020
• Fluorescence lifetime endomicroscopic image-based ex-vivo human lung cancer differentiation using machine learning Q Wang, J Hopgood, M Vallejo TechRxiv. January 15, 2020

2018

• Architecture of the mouse brain synaptome Zhu F, Cizeron M, Qiu Z, Benavides-Piccione R, Kopanitsa MV, Skene NG, Koniaris B, DeFelipe J, Fransen E, Komiyama NH, Grant SG Neuron. 22;99(4):781-99, 2018

2017

• SOPHIA: soft orthotic physiotherapy hand interactive aid Alistair C McConnell, Marta Vallejo, Renan Cipriano Moioli, Fabricio L Brasil, Nicola Secciani, Markus P Nemitz, Cecile P Riquart, David W Corne, Patricia A Vargas, Adam A Stokes Frontiers in Mechanical Engineering, 3, p.3, 2017
• Robotic devices and brain–machine interfaces for hand rehabilitation post-stroke Alistair McConnell, Renan Moioli, Fabricio Brasil, Marta Vallejo, David Corne, Patricia Vargas, Adam Stokes Journal of Rehabilitation Medicine, 49(6), pp.449-460, 2017
• Assessing the accuracy of an algorithm for the estimation of spatial gait parameters using inertial measurement units: application to healthy subject and hemiparetic stroke survivor. Visi, F., Georgiou, T., Holland, S., Pinzone, O., Donaldson, G. and Tetley, J. Proceedings of the 4th International Conference on Movement Computing (pp. 1-7), 2017

2016

• Exploring diagnostic models of Parkinson's disease with multi-objective regression. Marta Vallejo, Stuart Jamieson, Jeremy Cosgrove, Stephen L Smith, Michael A Lones, Jane E Alty, David W Corne In Symposium Series on Computational Intelligence (SSCI) (pp. 1-8). IEEE, 2016
• Questioning classic patient classification techniques in gait rehabilitation: insights from wearable haptic technology. Georgiou, T., Holland, S., van der Linden, J. and Donaldson, G eHealth 360°: International Summit on eHealth, Revised Selected Papers (pp. 327-339). Springer International Publishing, 2016

2015

• Hierarchical Clustering of DNA Microarray Data Using a Hybrid of Bacterial Foraging and Differential Evolution Muhammad Fuad, M.M. Proceedings of the 4th International Conference Theory and Practice of Natural Computing (TPNC), 4 (pp. 46-57). Springer International Publishing, 2015
• A blended user centred design study for wearable haptic gait rehabilitation following hemiparetic stroke Georgiou T, Holland S, van der Linden J, Tetley J, Stockley RC, Donaldson G, Garbutt L, Pinzone O, Grasselly F, Deleaye K 9th International Conference on Pervasive Computing Technologies for Healthcare (PervasiveHealth)(pp. 72-79). IEEE., 2015