- Chen, C., Qin, C., Ouyang, C., Li, Z., Wang, S., Qiu, H. … Rueckert, D. (2022). Enhancing MR image segmentation with realistic adversarial data augmentation. Medical Image Analysis, 82. doi:10.1016/j.media.2022.102597.
- Zimmerer, D., Full, P.M., Isensee, F., Jager, P., Adler, T., Petersen, J. … Maier-Hein, K. (2022). MOOD 2020: A Public Benchmark for Out-of-Distribution Detection and Localization on Medical Images. IEEE Transactions on Medical Imaging, 41(10), pp. 2728–2738. doi:10.1109/tmi.2022.3170077.
- Guizzo, E., Weyde, T. and Tarroni, G. (2021). Anti-transfer learning for task invariance in convolutional neural networks for speech processing. Neural Networks, 142, pp. 238–251. doi:10.1016/j.neunet.2021.05.012.
- Chen, C., Qin, C., Qiu, H., Tarroni, G., Duan, J., Bai, W. … Rueckert, D. (2020). Deep Learning for Cardiac Image Segmentation: A Review. Frontiers in Cardiovascular Medicine, 7. doi:10.3389/fcvm.2020.00025.
- Tarroni, G., Bai, W., Oktay, O., Schuh, A., Suzuki, H., Glocker, B. … Rueckert, D. (2020). Large-scale Quality Control of Cardiac Imaging in Population Studies: Application to UK Biobank. Scientific Reports, 10(1). doi:10.1038/s41598-020-58212-2.
- Chen, C., Ouyang, C., Tarroni, G., Schlemper, J., Qiu, H., Bai, W. … Rueckert, D. (2020). Unsupervised Multi-modal Style Transfer for Cardiac MR Segmentation. pp. 209–219. doi:10.1007/978-3-030-39074-7_22.
- Biffi, C., Cerrolaza, J.J., Tarroni, G., de Marvao, A., Cook, S.A., O'Regan, D.P. … Rueckert, D. (2019). 3D High-Resolution Cardiac Segmentation Reconstruction From 2D Views Using Conditional Variational Autoencoders. 2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI 2019). doi:10.1109/isbi.2019.8759328.
- Chen, C., Biffi, C., Tarroni, G., Petersen, S., Bai, W. and Rueckert, D. (2019). Learning Shape Priors for Robust Cardiac MR Segmentation from Multi-view Images. pp. 523–531. doi:10.1007/978-3-030-32245-8_58.
- Bai, W., Sinclair, M., Tarroni, G., Oktay, O., Rajchl, M., Vaillant, G. … Rueckert, D. (2018). Automated cardiovascular magnetic resonance image analysis with fully convolutional networks. Journal of Cardiovascular Magnetic Resonance, 20(1). doi:10.1186/s12968-018-0471-x.
- Rajchl, M., Lee, M.C.H., Schrans, F., Davidson, A., Passerat-Palmbach, J., Tarroni, G. … Rueckert, D. (2016). Learning under Distributed Weak Supervision. .
- Narang, A., Mor-Avi, V., Bhave, N.M., Tarroni, G., Corsi, C., Davidson, M.H. … Patel, A.R. (2016). Large high-density lipoprotein particle number is independently associated with microvascular function in patients with well-controlled low-density lipoprotein concentration: A vasodilator stress magnetic resonance perfusion study. Journal of Clinical Lipidology, 10(2), pp. 314–322. doi:10.1016/j.jacl.2015.12.006.
- Veronese, E., Tarroni, G., Visentin, S., Cosmi, E., Linguraru, M.G. and Grisan, E. (2014). Estimation of prenatal aorta intima-media thickness from ultrasound examination. Physics in Medicine and Biology, 59(21), pp. 6355–6371. doi:10.1088/0022-3727/59/21/6355.
- Tarroni, G., Tersi, L., Corsi, C. and Stagni, R. (2012). Prosthetic component segmentation with blur compensation: a fast method for 3D fluoroscopy. Medical & Biological Engineering & Computing, 50(6), pp. 631–640. doi:10.1007/s11517-012-0884-x.
- Conti, C.A., Votta, E., Corsi, C., De Marchi, D., Tarroni, G., Stevanella, M. … Redaelli, A. (2011). Left ventricular modelling: a quantitative functional assessment tool based on cardiac magnetic resonance imaging. Interface Focus, 1(3), pp. 384–395. doi:10.1098/rsfs.2010.0029.
London EC1V 0HB
Giacomo Tarroni has been a full-time researcher in the field of medical image analysis since 2009. His work has been mainly focused on image segmentation, image registration, quality control and object tracking for cardiovascular, brain and fetal images. In particular, he obtained his Ph.D. from the University of Bologna, Italy (in collaboration with the University of Chicago, U.S.) working on the automated analysis of first-pass myocardial perfusion sequences in MRI. During his post-doc at the University of Padova, Italy, he focused on the automated analysis of fetal ultrasound images. After being awarded a Marie Skłodowska-Curie Fellowship from the European Commission, he moved to Imperial College London, where he became interested in the applications of machine learning and AI to automated organ detection, quality control assessment and motion correction for cardiac MRI.
His current research focus is on machine learning approaches for unsupervised anomaly detection, self-supervised image classification/segmentation and federated learning, both for medical image analysis and more generally for computer vision applications.
Giacomo was able to generate over 183 k€ in funding from the EU by winning a Marie Skłodowska-Curie Fellowship for the project JUNO, of which he was Principal Investigator. In addition, in his career he has collaborated with several high-profile medical image analysis research projects, including SmartHeart (EPSRC, 5M£), iFind (Wellcome Trust and EPSRC , 10M£), CHIRON (EU Artemis-JU, 18M€).
Giacomo has recently been Associate Editor for the IEEE ISBI 2019 conference, and he often acts as reviewer for international journals (e.g. IEEE Trans Med Imaging, Medical Image Analysis, IEEE Trans Image Process, Plos ONE) as well as renowned international conferences (e.g. MICCAI, IEEE ISBI). Since 2018 he is board member of the UK Chapter of Marie Curie Alumni Association (MCAA-UK). In 2021 he became a Fellow of Advance Higher Education (HEA).
Giacomo is a member of the CitAI Research Centre.
- PhD, University of Bologna, Italy, Jan 2009 – Jun 2012
- M.S. in Electronic Engineering, University of Bologna, Italy, Sep 2005 – Oct 2008
- B.S. in Electronic Engineering, University of Bologna, Italy, Sep 2002 – Aug 2005
- Lecturer in Artificial Intelligence, City, University of London, Sep 2019 – present
- Research Fellow, Imperial College London, Nov 2017 – present
- Marie Skłodowska-Curie Fellow, Imperial College London, Nov 2015 – Nov 2017
- Post-doctoral Research Associate, University of Padova, Jun 2013 – Nov 2015
- Post-doctoral Research Associate, University of Bologna, Jul 2012 – May 2013
- Visiting Researcher, University of Chicago, Apr – Jul 2010
Unsupervised anomaly detection for medical images
Modern machine learning approaches (i.e. deep learning methods) have been recently proposed to automatically identify anomalies in
medical images. Most of them are based on supervised
learning and consequently have two important constraints.
First, they require large and diverse annotated datasets for
training. Second, they are specific to the abnormalities
annotated in the training datasets and therefore are unable to
generalise to other pathologies. Unsupervised anomaly
detection methods aim to overcome these
constraints by not relying on annotated datasets. Instead,
they focus on learning the underlying distribution of normal
images and then identifying as anomalies the images that do
not conform to the learnt distribution.
Our research is aimed at identifying novel methods for unsupervised anomaly detection in medical images, e.g. using vector-quantised variational auto-encoders and implicit field learning. We have recently published these approaches on top conferences in medical image analysis (e.g. ISBI and MICCAI).
Self-supervised medical image analysis
In computer vision tasks, self-supervision enables neural networks to leverage available unlabelled datasets for pre-training. Many different approaches recently proposed in the literature (e.g. SimCLR) are capable of reaching the accuracy of fully-supervised counterparts for image classification and segmentation.
Our research is aimed at developing novel approaches for self-supervised image classification/segmentation in the context of medical images.
Federated learning for medical image processing
In most applications, machine learning is performed in a centralised way: data is pulled from the different sources and model training happens in a single node. This setting is however unrealistic in most modern scenarios, where 1) data owners don’t want/can’t share their data and 2) data distribution varies from source to source. Federated learning consists in strategies aiming at addressing these issues. The core idea is that data remain at the different sources and only model updates are shared.
Our research is aimed at developing novel strategies for federated learning in the scenario of medical image classification/segmentation.
- Marimont, S.N. and Tarroni, G. (2021). Anomaly Detection Through Latent Space Restoration Using Vector Quantized Variational Autoencoders. 2021 IEEE 18th International Symposium on Biomedical Imaging (ISBI) 13-16 April. doi:10.1109/isbi48211.2021.9433778
- Marimont, S.N. and Tarroni, G. (2021). Implicit field learning for unsupervised anomaly detection in medical
- Bai, W., Suzuki, H., Huang, J., Francis, C., Wang, S., Tarroni, G. … Rueckert, D. (2020). A population-based phenome-wide association study of cardiac and aortic structure and function. Nature Medicine, 26(10), pp. 1654–1662. doi:10.1038/s41591-020-1009-y.
- Biffi, C., Cerrolaza, J.J., Tarroni, G., Bai, W., Marvao, A.D., Oktay, O. … Rueckert, D. (2020). Explainable Anatomical Shape Analysis through Deep Hierarchical
Generative Models. IEEE Transactions on Medical Imaging. doi:10.1109/TMI.2020.2964499.
- Tarroni, G., Oktay, O., Bai, W., Schuh, A., Suzuki, H., Passerat-Palmbach, J. … Rueckert, D. (2019). Learning-Based Quality Control for Cardiac MR Images. IEEE Transactions on Medical Imaging, 38(5), pp. 1127–1138. doi:10.1109/tmi.2018.2878509.
- Tarroni, G., Corsi, C., Antkowiak, P.F., Veronesi, F., Kramer, C.M., Epstein, F.H. … Patel, A.R. (2012). Myocardial Perfusion: Near-automated Evaluation from Contrast-enhanced MR Images Obtained at Rest and during Vasodilator Stress. Radiology, 265(2), pp. 576–583. doi:10.1148/radiol.12112475.
Publications by category
Conference papers and proceedings (30)
- Marimont, S.N. and Tarroni, G. (2022). Implicit U-Net for Volumetric Medical Image Segmentation. Medical Image Understanding and Analysis 26th Annual Conference, MIUA 2022 27-29 July, Cambridge, UK. doi:10.1007/978-3-031-12053-4_29
- Naval Marimont, S. and Tarroni, G. (2021). Implicit Field Learning for Unsupervised Anomaly Detection in Medical Images. doi:10.1007/978-3-030-87196-3_18
- Chen, C., Qin, C., Qiu, H., Ouyang, C., Wang, S., Chen, L. … Rueckert, D. (2020). Realistic Adversarial Data Augmentation for MR Image Segmentation. 23rd INTERNATIONAL CONFERENCE ON MEDICAL IMAGE COMPUTING & COMPUTER ASSISTED INTERVENTION 4-8 October, Lima, Peru.
- Wang, S., Tarroni, G., Qin, C., Mo, Y., Dai, C., Chen, C. … Bai, W. (2020). Deep Generative Model-based Quality Control for Cardiac MRI Segmentation. 23rd INTERNATIONAL CONFERENCE ON MEDICAL IMAGE COMPUTING & COMPUTER ASSISTED INTERVENTION 4-8 October, Lima, Peru.
- Bai, W., Chen, C., Tarroni, G., Duan, J., Guitton, F., Petersen, S.E. … Rueckert, D. (2019). Self-Supervised Learning for Cardiac MR Image Segmentation by Anatomical Position Prediction. doi:10.1007/978-3-030-32245-8_60
- Bai, W., Suzuki, H., Qin, C., Tarroni, G., Oktay, O., Matthews, P.M. … Rueckert, D. (2018). Recurrent Neural Networks for Aortic Image Sequence Segmentation with Sparse Annotations. doi:10.1007/978-3-030-00937-3_67
- Biffi, C., Oktay, O., Tarroni, G., Bai, W., De Marvao, A., Doumou, G. … Rueckert, D. (2018). Learning Interpretable Anatomical Features Through Deep Generative Models: Application to Cardiac Remodeling. doi:10.1007/978-3-030-00934-2_52
- Tarroni, G., Oktay, O., Sinclair, M., Bai, W., Schuh, A., Suzuki, H. … Rueckert, D. (2018). A Comprehensive Approach for Learning-Based Fully-Automated Inter-slice Motion Correction for Short-Axis Cine Cardiac MR Image Stacks. doi:10.1007/978-3-030-00928-1_31
- Tarroni, G., Oktay, O., Bai, W., Schuh, A., Suzuki, H., Passerat-Palmbach, J. … Rueckert, D. (2017). Learning-Based Heart Coverage Estimation for Short-Axis Cine Cardiac MR Images. doi:10.1007/978-3-319-59448-4_8
- Bai, W., Oktay, O., Sinclair, M., Suzuki, H., Rajchl, M., Tarroni, G. … Rueckert, D. (2017). Semi-supervised Learning for Network-Based Cardiac MR Image Segmentation. doi:10.1007/978-3-319-66185-8_29
- Oktay, O., Tarroni, G., Bai, W., De Marvao, A., O'Regan, D., Cook, S. … Rueckert, D. (2016). Respiratory motion correction for 2D cine cardiac MR images using probabilistic edge maps.
- Tarroni, G., Visentin, S., Cosmi, E. and Grisan, E. (2015). A fully automated approach to aortic distensibility quantification from fetal ultrasound images. 2015 Computing in Cardiology Conference (CinC) 6-9 September. doi:10.1109/cic.2015.7411014
- Grisan, E., Cantisani, G., Tarroni, G., Yoon, S.K. and Rossi, M. (2015). A supervised learning approach for the robust detection of heart beat in plethysmographic data. 2015 37th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) 25-29 August. doi:10.1109/embc.2015.7319716
- Boschetto, D., Mirzaei, H., Leong, R.W.L., Tarroni, G. and Grisan, E. (2015). Semiautomatic detection of villi in confocal endoscopy for the evaluation of celiac disease. 2015 37th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) 25-29 August. doi:10.1109/embc.2015.7320284
- Tarroni, G., Visentin, S., Cosmi, E. and Grisan, E. (2015). Fully-automated identification and segmentation of aortic lumen from fetal ultrasound images. 2015 37th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) 25-29 August. doi:10.1109/embc.2015.7318323
- Tarroni, G., Visentin, S., Cosmi, E. and Grisan, E. (2015). A novel approach to aortic intima-media thickness quantification from fetal ultrasound images. 2015 IEEE 12th International Symposium on Biomedical Imaging (ISBI 2015) 16-19 April. doi:10.1109/isbi.2015.7164006
- Tarroni, G., Castellaro, M., Boffano, C., Bruzzone, M.G., Bertoldo, A. and Grisan, E. (2015). A novel approach to motion correction for ASL images based on brain contours. SPIE Medical Imaging. doi:10.1117/12.2081784
- Tarroni, G., Visentin, S., Cosmi, E. and Grisan, E. (2014). Automated Estimation of Aortic Intima-Media Thickness from Fetal Ultrasound. doi:10.1007/978-3-319-13909-8_5
- Marino, M., Veronesi, F., Tarroni, G., Mor-Avi, V., Patel, A.R. and Corsi, C. (2014). Fully automated assessment of left ventricular volumes, function and mass from cardiac MRI.
- Tarroni, G., Visentin, S., Cosmi, E. and Grisan, E. (2014). Near-automated quantification of prenatal aortic intima-media thickness from ultrasound images.
- Kawaji, K., Marino, M., Tanaka, A., Tarroni, G., Ota, T., Lang, R.M. … Patel, A.R. (2014). A Novel Technique for Respiratory Motion Correction in Rapid Left Ventricular Myocardial T1 Mapping and Quantitative Analysis of Myocardial Fibrosis.
- Tarroni, G., Marsili, D., Veronesi, F., Corsi, C., Lamberti, C. and Sanguinetti, G. (2013). Near-automated 3D segmentation of left and right ventricles on magnetic resonance images. 2013 8th International Symposium on Image and Signal Processing and Analysis (ISPA) 4-6 September. doi:10.1109/ispa.2013.6703796
- Tarroni, G., Marsili, D., Veronesi, F., Corsi, C., Patel, A.R., Mor-Avi, V. … Lamberti, C. (2013). Automated MRI-based biventricular segmentation using 3D narrow-band statistical level-sets.
- Tarroni, G., Patel, A.R., Yodwut, C., Lang, R.M., Lamberti, C., Mor-Avi, V. … Corsi, C. (2012). Automated tracking of deformable objects based on non-rigid registration of cardiac images.
- Corsi, C., Tarroni, G., Tornani, A., Severi, S. and Lamberti, C. (2011). Automatic quantification of cardiac scar extent from late gadolinium enhancement magnetic resonance imaging.
- Tarroni, G., Corsi, C., Antkowiak, P.F., Veronesi, F., Kramer, C.M., Epstein, F.H. … Mor-Avi, V. (2011). Clinical validation of an automated technique for MRI based quantification of myocardial perfusion.
- Caiani, E.G., Redaelli, A., Parodi, O., Votta, E., Maffessanti, F., Tripoliti, E. … Corsi, C. (2010). Development and validation of automated endocardial and epicardial contour detection for MRI volumetric and wall motion analysis.
- Lemmo, M., Azarine, A., Tarroni, G., Corsi, C. and Lamberti, C. (2010). Estimation of right ventricular volume, quantitative assessment of wall motion and trabeculae mass in arrhythmogenic right ventricular dysplasia.
- Tarroni, G., Patel, A.R., Veronesi, F., Lamberti, C., Mor-Avi, V. and Corsi, C. (2010). Feasibility of automated frame-by-frame myocardial segmentation as a basis for quantification of first-pass perfusion images. doi:10.1186/1532-429x-12-s1-o45
- Tarroni, G., Patel, A.R., Veronesi, F., Walter, J., Lamberti, C., Lang, R.M. … Corsi, C. (2010). MRI-based quantification of myocardial perfusion at rest and stress using automated frame-by-frame segmentation and non-rigid registration.