Microscopy
Microscopy
I have worked with data from Electron, Light, Fluorescence, Confocal and Multiphoton Microscopes, but in addition, for several years I managed the intravital microscopes of the tumour microcirculation group at Sheffield (shown below).
Team members:
Kokeb Dese Gebremeskel
Alumni, City, University of London
Kwun Ho Ngan
Mauricio Alberto Ortega-Ruiz
City, University of London
Riad Ibadulla
City, University of London
Youssef Arafat
City, University of London
Ananda Ananda
City, University of London
Collaborators:
Greg Slabaugh
Jakob Nikolas Kather
Jo Verhoeven
Karen Knapp
Lucy Collinson
Martin Jones
Publications:
 | DRD-UNet, a UNet-like architecture for multi-class breast cancer semantic segmentation Mauricio Alberto Ortega-Ruiz, Cefa Karabağ, Edgar Roman-Rangel, Constantino Carlos Reyes-Aldasoro Published in IEEE Access, March 2024 (see publication) Research themes: Cancer, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
 | Fat-U-Net: Non-Contracting U-Net for Free-Space Optical Neural Networks Riad Ibadulla, Constantino Carlos Reyes-Aldasoro, Thomas M. Chen" Published in AI and Optical Data Sciences V, January 2024 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Microscopy Type: Conference |
 | Dynamic analysis of the effects of vehicle movement over bridges observed with CCTV images Alfredo Camara, Constantino Carlos Reyes-Aldasoro Published in Engrxiv, January 2024 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Microscopy Type: Pre-print |
 | PLPose: An Efficient Framework for Detecting Power Lines via Key Points-based Pose Estimation Rabeea Jaffari, Manzoor Ahmed Hashmani, Constantino Carlos Reyes-Aldasoro, Aisha Zahid Junejo, Hasmi Taib, M Nasir B Abdullah Published in Journal of King Saud University-Computer and Information Sciences, June 2023 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
 | Contrastive counterfactual visual explanations with overdetermination Adam White, Kwun Ho Ngan, James Phelan, Kevin Ryan, Saman Sadeghi Afgeh, Constantino Carlos Reyes-Aldasoro, Artur d'Avila Garcez Published in Machine Learning, March 2023 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
 | Impact of Training Data, Ground Truth and Shape Variability in the Deep Learning-Based Semantic Segmentation of HeLa Cells Observed with Electron Microscopy Cefa Karabağ, Mauricio Alberto Ortega-Ruíz, Constantino Carlos Reyes-Aldasoro" Published in Journal of Imaging, March 2023 (see publication) Research themes: Cancer, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
 | FatNet: High-Resolution Kernels for Classification Using Fully Convolutional Optical Neural Networks Riad Ibadulla, Thomas M. Chen, Constantino Carlos Reyes-Aldasoro" Published in AI, March 2023 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
 | FatNet: High Resolution Kernels for Classification Using Fully Convolutional Optical Neural Networks Riad Ibadulla, Thomas M. Chen, Constantino Carlos Reyes-Aldasoro Published in arXiv, October 2022 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Microscopy Type: Pre-print |
| | Volumetric Semantic Instance Segmentation of the Plasma Membrane of HeLa Cells Azucena Ascencio-Cabral, Constantino Carlos Reyes-Aldasoro" Published in Journal of Imaging, September 2022 (see publication) Research themes: Machine Learning, AI, Deep Learning, Medical Imaging, Microscopy Type: Paper |
 | Computational Image Analysis Techniques, Programming Languages and Software Platforms Used in Cancer Research: A Scoping Review Youssef Arafat, Constantino Carlos Reyes-Aldasoro" Published in Lecture Notes in Computer Science, July 2022 (see publication) Research themes: Cancer, Machine Learning, AI, Deep Learning, Medical Imaging, Microscopy Type: Paper |
 | Automatic Gemstone Classification Using Computer Vision Bona Hiu Yan Chow, Constantino Carlos Reyes-Aldasoro, Published in Minerals, December 2021 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
| | Contrastive Counterfactual Visual Explanations With Overdetermination Adam White, Kwun Ho Ngan, James Phelan, Saman Sadeghi Afgeh, Kevin Ryan, Constantino Carlos Reyes-Aldasoro, Artur d'Avila Garcez Published in arXiv, September 2021 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Microscopy Type: Pre-print |
 | Classification and Visualisation of Normal and Abnormal Radiographs; A Comparison between Eleven Convolutional Neural Network Architectures Ananda Ananda, Kwun Ho Ngan, Cefa Karabağ, Aram Ter-Sarkisov, Eduardo Alonso, Constantino Carlos Reyes-Aldasoro Published in Sensors (Basel), September 2021 (see publication) Research themes: Machine Learning, AI, Deep Learning, Medical Imaging, Microscopy Type: Journal |
 | Special Issue on Computational Pathology: An Overview Anant Madabhushi, Constantino Carlos Reyes-Aldasoro Published in Medical Image Analysis, June 2021 (see publication) Research themes: Cancer, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
| | Volumetric Semantic Instance Segmentation of the Plasma Membrane of HeLa Cells Cefa Karabağ, Martin L. Jones, Constantino Carlos Reyes-Aldasoro" Published in Journal of Imaging, June 2021 (see publication) Research themes: Cancer, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
| | A Novel Focal Phi Loss for Power Line Segmentation with Auxiliary Classifier U-Net Rabeea Jaffari, Manzoor Ahmed Hashmani, Constantino Carlos Reyes-Aldasoro Published in Sensors (Basel), April 2021 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
| | Morphological Estimation of Cellularity on Neo-Adjuvant Treated Breast Cancer Histological Images Mauricio Alberto Ortega-Ruiz, Cefa Karabağ, Victor García Garduño, Constantino Carlos Reyes-Aldasoro Published in Journal of Imaging, October 2020 (see publication) Research themes: Cancer, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
 | Semantic segmentation of HeLa cells An objective comparison between one traditional algorithm and four deep-learning architectures Cefa Karabağ, Martin Jones, Christopher J. Peddie, Anne E Weston, Lucy M Collinson, Constantino Carlos Reyes-Aldasoro" Published in PLoS ONE, October 2020 (see publication) Research themes: Cancer, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
| | Geometric semi-automatic analysis of radiographs of Colles’ fractures Constantino Carlos Reyes-Aldasoro, Kwun Ho Ngan, Ananda Ananda, Artur d’Avila Garcez, Andrew Appelboam, Karen M. Knapp Published in PLoS ONE, September 2020 (see publication) Research themes: Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
 | Geometric differences between nuclear envelopes of Wild-type and Chlamydia trachomatis-infected HeLa cells Cefa Karabağ, Martin L. Jones, Christopher J. Peddie, Anne E. Weston, Lucy M. Collinson, Constantino Carlos Reyes-Aldasoro, Published in bioRxiv, April 2020 (see publication) Research themes: Cancer, Machine Learning, AI, Deep Learning, Microscopy Type: Pre-print |
| | The relationship between Fully Connected Layers and number of classes for the analysis of retinal images Ajna Ram, Constantino Carlos Reyes-Aldasoro Published in arXiv, March 2020 (see publication) Research themes: Image Processing, Machine Learning, AI, Deep Learning, Medical Imaging, Microscopy Type: Pre-print |
 | Predicting survival from colorectal cancer histology slides using deep learning A retrospective multicenter study Jakob Nikolas Kather, Johannes Krisam, Pornpimol Charoentong, Tom Luedde, Esther Herpel, Cleo-Aron Weis, Timo Gaiser, Alexander Marx, Nektarios A. Valous, Dyke Ferber, Lina Jansen, Constantino Carlos Reyes-Aldasoro, Inka Zörnig, Dirk Jäger, Hermann Brenner, Jenny Chang-Claude, Michael Hoffmeister, Niels Halama Published in PLoS Medicine, January 2019 (see publication) Research themes: Cancer, Machine Learning, AI, Deep Learning, Microscopy Type: Paper |
 | Texture Segmentation An Objective Comparison between Five Traditional Algorithms and a Deep-Learning U-Net Architecture Cefa Karabağ, Jo Verhoeven, Naomi Rachel Miller, Constantino Carlos Reyes-Aldasoro Published in Applied Sciences, January 2019 (see publication) Research themes: Machine Learning, AI, Deep Learning, Microscopy, Texture Type: Paper |
 | Generating Magnetic Resonance Spectroscopy Imaging Data of Brain Tumours from Linear, Non-linear and Deep Learning Models Nathan Olliverre, Guang Yang, Greg Slabaugh, Constantino Carlos Reyes-Aldasoro, Eduardo Alonso Published in MICCAI Sashimi, September 2018 (see publication) Research themes: Machine Learning, AI, Deep Learning, Medical Imaging, Microscopy Type: Conference |
 | A combined algorithm for image segmentation using neural networks and 3D surface reconstruction using dynamic meshes Constantino Carlos Reyes-Aldasoro, M. E. Algorri Published in Revista Mexicana de Ingeniería Biomédica, January 2000 (see publication) Research themes: Machine Learning, AI, Deep Learning, Medical Imaging, Microscopy Type: Paper |
 | A hybrid model based on dynamic programming, neural networks, and surrogate value for inventory optimisation applications C. C. Reyes-Aldasoro, A. R. Ganguly, G. Lemus, A. and Gupta Published in Journal of the Operational Research Society, January 1999 (see publication) Research themes: Machine Learning, AI, Deep Learning, Microscopy Type: Paper |