Miguel O. Bernabeu

Publication Activity (10 Years)

Years Active: 2007-2024
Publications (10 Years): 29

Top Topics

Optical Coherence Tomography

Top Venues

PLoS Comput. Biol.

Publications

Ben Philps, Maria del C. Valdés Hernández, Susana Muñoz Maniega, Mark E. Bastin, Eleni Sakka, Una Clancy, Joanna M. Wardlaw, Miguel O. Bernabeu
Stochastic Uncertainty Quantification Techniques Fail to Account for Inter-analyst Variability in White Matter Hyperintensity Segmentation. MIUA (1) (2024)
Jamie Burke, Justin Engelmann, Charlene Hamid, Diana Moukaddem, Dan Pugh, Neeraj Dhaun, Amos J. Storkey, Niall C. Strang, Stuart King, Tom J. MacGillivray, Miguel O. Bernabeu, Ian J. C. MacCormick
Domain-specific augmentations with resolution agnostic self-attention mechanism improves choroid segmentation in optical coherence tomography images. CoRR (2024)
Justin Engelmann, Miguel O. Bernabeu
Training a high-performance retinal foundation model with half-the-data and 400 times less compute. CoRR (2024)
Justin Engelmann, Diana Moukaddem, Lucas Gago, Niall C. Strang, Miguel O. Bernabeu
Applicability of oculomics for individual risk prediction: Repeatability and robustness of retinal Fractal Dimension using DART and AutoMorph. CoRR (2024)
Darwon Rashid, Ylenia Giarratano, Charlene Hamid, Thomas J. MacGillivray, Graciela Terrera Muniz, Craig Ritchie, Baljean Dhillon, Megan Reid-Schachter, Audrey Low, Maria-Eleni Dounavi, John T. O'Brien, Miguel O. Bernabeu
Associations Between Retinal Microvasculature Changes and Gray Matter Volume in a Mid-Life Cohort at Risk of Developing Alzheimer's Disease. OMIA@MICCAI (2023)
Jamie Burke, Justin Engelmann, Charlene Hamid, Megan Reid-Schachter, Tom Pearson, Dan Pugh, Neeraj Dhaun, Stuart King, Tom J. MacGillivray, Miguel O. Bernabeu, Amos J. Storkey, Ian J. C. MacCormick
Efficient and fully-automatic retinal choroid segmentation in OCT through DL-based distillation of a hand-crafted pipeline. CoRR (2023)
Nusa Faric, Sue Hinder, Robin Williams, Rishi Ramaesh, Miguel O. Bernabeu, Edwin van Beek, Kathrin M. Cresswell
Early Experiences of Integrating an Artificial Intelligence-Based Diagnostic Decision Support System into Radiology Settings: A Qualitative Study. EFMI-STC (2023)
Justin Engelmann, Amos J. Storkey, Miguel O. Bernabeu
QuickQual: Lightweight, convenient retinal image quality scoring with off-the-shelf pretrained models. CoRR (2023)
Fabian S. L. Yii, Thomas J. MacGillivray, Miguel O. Bernabeu
Data Efficiency of Segment Anything Model for Optic Disc and Cup Segmentation. MTSAIL/LEAF/AI4Treat/MMMI/REMIA@MICCAI (2023)
Justin Engelmann, Jamie Burke, Charlene Hamid, Megan Reid-Schachter, Dan Pugh, Neeraj Dhaun, Diana Moukaddem, Lyle Gray, Niall C. Strang, Paul McGraw, Amos J. Storkey, Paul J. Steptoe, Stuart King, Tom J. MacGillivray, Miguel O. Bernabeu, Ian J. C. MacCormick
Choroidalyzer: An open-source, end-to-end pipeline for choroidal analysis in optical coherence tomography. CoRR (2023)
Nusa Faric, Sue Hinder, Robin Williams, Rishi Ramaesh, Miguel O. Bernabeu, Edwin van Beek, Kathrin M. Cresswell
Early experiences of integrating an artificial intelligence-based diagnostic decision support system into radiology settings: a qualitative study. J. Am. Medical Informatics Assoc. 31 (1) (2023)
Justin Engelmann, Amos J. Storkey, Miguel O. Bernabeu
QuickQual: Lightweight, Convenient Retinal Image Quality Scoring with Off-the-Shelf Pretrained Models. OMIA@MICCAI (2023)
Jesse Phitidis, Alison Q. O'Neil, Stewart Wiseman, David Alexander Dickie, Eleni Sakka, Agniete Kampaite, William Whiteley, Miguel O. Bernabeu, Beatrice Alex, Joanna M. Wardlaw, Maria del C. Valdés Hernández
Segmentation of White Matter Hyperintensities and Ischaemic Stroke Lesions in Structural MRI. MIUA (2023)
Jessica R. Crawshaw, Jennifer A. Flegg, Miguel O. Bernabeu, James M. Osborne
Mathematical models of developmental vascular remodelling: A review. PLoS Comput. Biol. 19 (8) (2023)
Darwon Rashid, Ylenia Giarratano, Charlene Hamid, Thomas J. MacGillivray, Graciela Terrera Muniz, Craig Ritchie, Baljean Dhillon, Miguel O. Bernabeu
Analysing Optical Coherence Tomography Angiography of Mid-Life Persons at Risk of Developing Alzheimer's Disease Later in Life. OMIA@MICCAI (2022)
Justin Engelmann, Alice D. McTrusty, Ian J. C. MacCormick, Emma Pead, Amos J. Storkey, Miguel O. Bernabeu
Detecting multiple retinal diseases in ultra-widefield fundus imaging and data-driven identification of informative regions with deep learning. Nat. Mac. Intell. 4 (12) (2022)
Justin Engelmann, Ana Villaplana-Velasco, Amos J. Storkey, Miguel O. Bernabeu
Robust and efficient computation of retinal fractal dimension through deep approximation. CoRR (2022)
Justin Engelmann, Alice D. McTrusty, Ian J. C. MacCormick, Emma Pead, Amos J. Storkey, Miguel O. Bernabeu
Detection of multiple retinal diseases in ultra-widefield fundus images using deep learning: data-driven identification of relevant regions. CoRR (2022)
Fabian S. L. Yii, Raman Dutt, Thomas J. MacGillivray, Baljean Dhillon, Miguel O. Bernabeu, Niall C. Strang
Rethinking Retinal Image Quality: Treating Quality Threshold as a Tunable Hyperparameter. OMIA@MICCAI (2022)
Justin Engelmann, Ana Villaplana-Velasco, Amos J. Storkey, Miguel O. Bernabeu
Robust and Efficient Computation of Retinal Fractal Dimension Through Deep Approximation. OMIA@MICCAI (2022)
Lowell T. Edgar, Claudio A. Franco, Holger Gerhardt, Miguel O. Bernabeu
On the preservation of vessel bifurcations during flow-mediated angiogenic remodelling. PLoS Comput. Biol. 17 (2) (2021)
Justin Engelmann, Amos J. Storkey, Miguel O. Bernabeu
Global explainability in aligned image modalities. CoRR (2021)
Gabriele Beltramo, Rayna Andreeva, Ylenia Giarratano, Miguel O. Bernabeu, Rik Sarkar, Primoz Skraba
Euler Characteristic Surfaces. CoRR (2021)
Darwon Rashid, Sophie Cai, Ylenia Giarratano, Calum D. Gray, Charlene Hamid, Dilraj S. Grewal, Tom J. MacGillivray, Sharon Fekrat, Cason B. Robbins, Srinath Soundararajan, Justin P. Ma, Miguel O. Bernabeu
Reproducibility of Retinal Vascular Phenotypes Obtained with Optical Coherence Tomography Angiography: Importance of Vessel Segmentation. MIUA (2021)
Rayna Andreeva, Alessandro Fontanella, Ylenia Giarratano, Miguel O. Bernabeu
DR Detection Using Optical Coherence Tomography Angiography (OCTA): A Transfer Learning Approach with Robustness Analysis. OMIA@MICCAI (2020)
Fergus R. Cooper, Ruth E. Baker, Miguel O. Bernabeu, Rafel Bordas, Louise Bowler, Alfonso Bueno-Orovio, Helen M. Byrne, Valentina Carapella, Louie Cardone-Noott, Jonathan Cooper, Sara Dutta, Benjamin D. Evans, Alexander G. Fletcher, James A. Grogan, Wenxian Guo, Daniel G. Harvey, Maurice Hendrix, David Kay, Jochen Kursawe, Philip K. Maini, Beth McMillan, Gary R. Mirams, James M. Osborne, Pras Pathmanathan, Joe Pitt-Francis, Martin Robinson, Blanca Rodríguez, Raymond J. Spiteri, David Gavaghan
Chaste: Cancer, Heart and Soft Tissue Environment. J. Open Source Softw. 5 (47) (2020)
Ylenia Giarratano, Alisa Pavel, Jie Lian, Rayna Andreeva, Alessandro Fontanella, Rik Sarkar, Laura J. Reid, Shareen Forbes, Dan Pugh, Tariq E. Farrah, Neeraj Dhaun, Baljean Dhillon, Thomas J. MacGillivray, Miguel O. Bernabeu
A Framework for the Discovery of Retinal Biomarkers in Optical Coherence Tomography Angiography (OCTA). OMIA@MICCAI (2020)
Ylenia Giarratano, Eleonora Bianchi, Calum D. Gray, Andrew Morris, Tom J. MacGillivray, Baljean Dhillon, Miguel O. Bernabeu
Automated and Network Structure Preserving Segmentation of Optical Coherence Tomography Angiograms. CoRR (2019)
James M. Osborne, Miguel O. Bernabeu
A Fully Discrete Open Source Framework for the Simulation of Vascular Remodelling. EMBC (2018)
Bernhard Knapp, Rémi Bardenet, Miguel O. Bernabeu, Rafel Bordas, Maria Bruna, Ben Calderhead, Jonathan Cooper, Alexander G. Fletcher, Derek Groen, Bram Kuijper, Joanna Lewis, Greg J. McInerny, Timo Minssen, James M. Osborne, Verena Paulitschke, Joe Pitt-Francis, Jelena Todoric, Christian A. Yates, David Gavaghan, Charlotte M. Deane
Ten Simple Rules for a Successful Cross-Disciplinary Collaboration. PLoS Comput. Biol. 11 (4) (2015)
Mohamed A. Itani, Ulf D. Schiller, Sebastian Schmieschek, James Hetherington, Miguel O. Bernabeu, Hoskote Chandrashekar, Fergus Robertson, Peter V. Coveney, Derek Groen
An automated multiscale ensemble simulation approach for vascular blood flow. CoRR (2015)
Mohamed A. Itani, Ulf D. Schiller, Sebastian Schmieschek, James Hetherington, Miguel O. Bernabeu, Hoskote Chandrashekar, Fergus Robertson, Peter V. Coveney, Derek Groen
An automated multiscale ensemble simulation approach for vascular blood flow. J. Comput. Sci. 9 (2015)
Miguel O. Bernabeu, Yang Lu, Jan Lammer, Lloyd Paul Aiello, Peter V. Coveney, Jennifer K. Sun
Characterization of parafoveal hemodynamics associated with diabetic retinopathy with adaptive optics scanning laser ophthalmoscopy and computational fluid dynamics. EMBC (2015)
Derek Groen, David Abou Chacra, Rupert W. Nash, Jirí Jaros, Miguel O. Bernabeu, Peter V. Coveney
Weighted decomposition in high-performance lattice-Boltzmann simulations: are some lattice sites more equal than others? CoRR (2014)
Miguel O. Bernabeu, James Southern, Nicholas Wilson, Peter E. Strazdins, Jonathan Cooper, Joe Pitt-Francis
Chaste: A case study of parallelisation of an open source finite-element solver with applications to computational cardiac electrophysiology simulation. Int. J. High Perform. Comput. Appl. 28 (1) (2014)
Derek Groen, David Abou Chacra, Rupert W. Nash, Jirí Jaros, Miguel O. Bernabeu, Peter V. Coveney
Weighted Decomposition in High-Performance Lattice-Boltzmann Simulations: Are Some Lattice Sites More Equal than Others? EASC (2014)
James M. Osborne, Miguel O. Bernabeu, Maria Bruna, Ben Calderhead, Jonathan Cooper, Neil Dalchau, Sara-Jane Dunn, Alexander G. Fletcher, Robin Freeman, Derek Groen, Bernhard Knapp, Greg J. McInerny, Gary R. Mirams, Joe Pitt-Francis, Biswa Sengupta, David W. Wright, Christian A. Yates, David Gavaghan, Stephen Emmott, Charlotte M. Deane
Ten Simple Rules for Effective Computational Research. PLoS Comput. Biol. 10 (3) (2014)
Gary R. Mirams, Christopher J. Arthurs, Miguel O. Bernabeu, Rafel Bordas, Jonathan Cooper, Alberto Corrias, Yohan Davit, Sara-Jane Dunn, Alexander G. Fletcher, Daniel G. Harvey, Megan E. Marsh, James M. Osborne, Pras Pathmanathan, Joe Pitt-Francis, James Southern, Nejib Zemzemi, David Gavaghan
Chaste: An Open Source C++ Library for Computational Physiology and Biology. PLoS Comput. Biol. 9 (3) (2013)
Miguel O. Bernabeu, Claudio A. Franco, Martin Jones, Jens H. Nielsen, Timm Krüger, Rupert W. Nash, Derek Groen, James Hetherington, Holger Gerhardt, Peter V. Coveney
Computer simulations reveal complex distribution of haemodynamic forces in a mouse retina model of angiogenesis. CoRR (2013)
Derek Groen, James Hetherington, Hywel B. Carver, Rupert W. Nash, Miguel O. Bernabeu, Peter V. Coveney
Analysing and modelling the performance of the HemeLB lattice-Boltzmann simulation environment. J. Comput. Sci. 4 (5) (2013)
Derek Groen, James Hetherington, Hywel B. Carver, Rupert W. Nash, Miguel O. Bernabeu, Peter V. Coveney
Analyzing and Modeling the Performance of the HemeLB Lattice-Boltzmann Simulation Environment CoRR (2012)
Miguel O. Bernabeu, Rupert W. Nash, Derek Groen, Hywel B. Carver, James Hetherington, Timm Krüger, Peter V. Coveney
Choice of blood rheology model has minor impact on computational assessment of shear stress mediated vascular risk CoRR (2012)
Hywel B. Carver, Derek Groen, James Hetherington, Rupert W. Nash, Miguel O. Bernabeu, Peter V. Coveney
Coalesced communication: a design pattern for complex parallel scientific software CoRR (2012)
Derek Groen, Joris Borgdorff, Carles Bona-Casas, James Hetherington, Rupert W. Nash, Stefan J. Zasada, Ilya Saverchenko, Mariusz Mamonski, Krzysztof Kurowski, Miguel O. Bernabeu, Alfons G. Hoekstra, Peter V. Coveney
Flexible composition and execution of high performance, high fidelity multiscale biomedical simulations CoRR (2012)
Nejib Zemzemi, Miguel O. Bernabeu, Javier Saiz, Blanca Rodríguez
Simulating Drug-Induced Effects on the Heart: From Ion Channel to Body Surface Electrocardiogram. FIMH (2011)
Miguel O. Bernabeu, David Kay
Scalable parallel preconditioners for an open source cardiac electrophysiology simulation package. ICCS (2011)
James Southern, Gerard J. Gorman, M. D. Piggott, Patrick E. Farrell, Miguel O. Bernabeu, Joe Pitt-Francis
Simulating cardiac electrophysiology using anisotropic mesh adaptivity. J. Comput. Sci. 1 (2) (2010)
Miguel O. Bernabeu, Pras Pathmanathan, Joe Pitt-Francis, David Kay
Stimulus Protocol Determines the Most Computationally Efficient Preconditioner for the Bidomain Equations. IEEE Trans. Biomed. Eng. 57 (12) (2010)
James Southern, Gerard J. Gorman, M. D. Piggott, Patrick E. Farrell, Miguel O. Bernabeu, Joe Pitt-Francis
Anisotropic mesh adaptivity for cardiac electrophysiology. ICCS (1) (2010)
Joe Pitt-Francis, Pras Pathmanathan, Miguel O. Bernabeu, Rafel Bordas, Jonathan Cooper, Alexander G. Fletcher, Gary R. Mirams, Philip J. Murray, James M. Osborne, Alex Walter, S. Jonathan Chapman, Alan Garny, Ingeborg M. M. van Leeuwen, Philip K. Maini, Blanca Rodríguez, Sarah L. Waters, Jonathan P. Whiteley, Helen M. Byrne, David Gavaghan
Chaste: A test-driven approach to software development for biological modelling. Comput. Phys. Commun. 180 (12) (2009)
Miguel O. Bernabeu, Mariam Taroncher, Víctor M. García, Ana Vidal
Robust Parallel Implementation of a Lanczos-based Algorithm for an Structured Electromagnetic Eigenvalue Problem. Scalable Comput. Pract. Exp. 8 (3) (2007)