2024
Authors
Beirao, MM; Matos, J; Gon alves, T; Kase, C; Nakayama, LF; de Freitas, D; Cardoso, JS;
Publication
2024 IEEE INTERNATIONAL CONFERENCE ON BIOINFORMATICS AND BIOMEDICINE, BIBM
Abstract
Keratitis is an inflammatory corneal condition responsible for 10% of visual impairment in low- and middleincome countries (LMICs), with bacteria, fungi, or amoeba as the most common infection etiologies. While an accurate and timely diagnosis is crucial for the selected treatment and the patients' sight outcomes, due to the high cost and limited availability of laboratory diagnostics in LMICs, diagnosis is often made by clinical observation alone, despite its lower accuracy. In this study, we investigate and compare different deep learning approaches to diagnose the source of infection: 1) three separate binary models for infection type predictions; 2) a multitask model with a shared backbone and three parallel classification layers (Multitask V1); and, 3) a multitask model with a shared backbone and a multi-head classification layer (Multitask V2). We used a private Brazilian cornea dataset to conduct the empirical evaluation. We achieved the best results with Multitask V2, with an area under the receiver operating characteristic curve (AUROC) confidence intervals of 0.7413-0.7740 (bacteria), 0.83950.8725 (fungi), and 0.9448-0.9616 (amoeba). A statistical analysis of the impact of patient features on models' performance revealed that sex significantly affects amoeba infection prediction, and age seems to affect fungi and bacteria predictions.
2024
Authors
Eduard-Alexandru Bonci; Orit Kaidar-Person; Marília Antunes; Oriana Ciani; Helena Cruz; Rosa Di Micco; Oreste Davide Gentilini; Nicole Rotmensz; Pedro Gouveia; Jörg Heil; Pawel Kabata; Nuno Freitas; Tiago Gonçalves; Miguel Romariz; Helena Montenegro; Hélder P. Oliveira; Jaime S. Cardoso; Henrique Martins; Daniela Lopes; Marta Martinho; Ludovica Borsoi; Elisabetta Listorti; Carlos Mavioso; Martin Mika; André Pfob; Timo Schinköthe; Giovani Silva; Maria-Joao Cardoso;
Publication
Cancer Research
Abstract
2024
Authors
Gonçalves, T; Arias, DP; Willett, J; Hoebel, KV; Cleveland, MC; Ahmed, SR; Gerstner, ER; Cramer, JK; Cardoso, JS; Bridge, CP; Kim, AE;
Publication
CoRR
Abstract
2024
Authors
Pereira, C; Cruz, RPM; Fernandes, JND; Pinto, JR; Cardoso, JS;
Publication
IEEE Trans. Intell. Veh.
Abstract
2024
Authors
Freitas, N; Montenegro, H; Cardoso, MJ; Cardoso, JS;
Publication
IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING, ISBI 2024
Abstract
Breast cancer locoregional treatment causes alterations to the physical aspect of the breast, often negatively impacting the self-esteem of patients unaware of the possible aesthetic outcomes of those treatments. To improve patients' self-esteem and enable a more informed choice of treatment when multiple options are available, the possibility to predict how the patient might look like after surgery would be of invaluable help. However, no work has been proposed to predict the aesthetic outcomes of breast cancer treatment. As a first step, we compare traditional computer vision and deep learning approaches to reproduce asymmetries of post-operative patients on pre-operative breast images. The results suggest that the traditional approach is better at altering the contour of the breast. In contrast, the deep learning approach succeeds in realistically altering the position and direction of the nipple.
2024
Authors
Rio Torto, I; Gonçalves, T; Cardoso, JS; Teixeira, LF;
Publication
IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING, ISBI 2024
Abstract
In fields that rely on high-stakes decisions, such as medicine, interpretability plays a key role in promoting trust and facilitating the adoption of deep learning models by the clinical communities. In the medical image analysis domain, gradient-based class activation maps are the most widely used explanation methods and the field lacks a more in depth investigation into inherently interpretable models that focus on integrating knowledge that ensures the model is learning the correct rules. A new approach, B-cos networks, for increasing the interpretability of deep neural networks by inducing weight-input alignment during training showed promising results on natural image classification. In this work, we study the suitability of these B-cos networks to the medical domain by testing them on different use cases (skin lesions, diabetic retinopathy, cervical cytology, and chest X-rays) and conducting a thorough evaluation of several explanation quality assessment metrics. We find that, just like in natural image classification, B-cos explanations yield more localised maps, but it is not clear that they are better than other methods' explanations when considering more explanation properties.
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