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Publicações

Publicações por BIO

2020

Pre-Training Autoencoder for Lung Nodule Malignancy Assessment Using CT Images

Autores
Silva, F; Pereira, T; Frade, J; Mendes, J; Freitas, C; Hespanhol, V; Luis Costa, JL; Cunha, A; Oliveira, HP;

Publicação
APPLIED SCIENCES-BASEL

Abstract
Lung cancer late diagnosis has a large impact on the mortality rate numbers, leading to a very low five-year survival rate of 5%. This issue emphasises the importance of developing systems to support a diagnostic at earlier stages. Clinicians use Computed Tomography (CT) scans to assess the nodules and the likelihood of malignancy. Automatic solutions can help to make a faster and more accurate diagnosis, which is crucial for the early detection of lung cancer. Convolutional neural networks (CNN) based approaches have shown to provide a reliable feature extraction ability to detect the malignancy risk associated with pulmonary nodules. This type of approach requires a massive amount of data to model training, which usually represents a limitation in the biomedical field due to medical data privacy and security issues. Transfer learning (TL) methods have been widely explored in medical imaging applications, offering a solution to overcome problems related to the lack of training data publicly available. For the clinical annotations experts with a deep understanding of the complex physiological phenomena represented in the data are required, which represents a huge investment. In this direction, this work explored a TL method based on unsupervised learning achieved when training a Convolutional Autoencoder (CAE) using images in the same domain. For this, lung nodules from the Lung Image Database Consortium and Image Database Resource Initiative (LIDC-IDRI) were extracted and used to train a CAE. Then, the encoder part was transferred, and the malignancy risk was assessed in a binary classification-benign and malignant lung nodules, achieving an Area Under the Curve (AUC) value of 0.936. To evaluate the reliability of this TL approach, the same architecture was trained from scratch and achieved an AUC value of 0.928. The results reported in this comparison suggested that the feature learning achieved when reconstructing the input with an encoder-decoder based architecture can be considered an useful knowledge that might allow overcoming labelling constraints.

2020

Gait Pattern Analysis with Accelerometer Data From a Smartphone in PAD Patients

Autores
Renner, K; Filipe, V; Pereira, LT; Silva, I; Abrantes, C; Paredes, H;

Publicação
2020 INTERNATIONAL CONFERENCE ON E-HEALTH AND BIOENGINEERING (EHB)

Abstract
Current research shows discrepancies in the gait pattern of patients with peripheral artery disease (PAD). Some studies suggest a change in gait pattern after the manifestation of claudication pain while others found patients with PAD already show a pathological gait, even before the intermittent claudication arises, and no change once the pain manifests. This exploratory research examines what change in gait pattern can be detected once claudication pain arises with the help of an accelerometer embedded in a smartphone. This study aims to contribute to the development of a process to remotely collect accelerometer data in a mobile health application, which then can be used to analyze gait pattern in patients with PAD on a larger scale. The findings of this exploratory study show that processing and analyzing accelerometer data from smartphone for gait analysis is viable and establishes a methodology for collecting and analyzing PAD patients' data. The major limitation of this study is the small sample size that do not provide the necessary reliability of the findings, about gait pattern changes. Further gait data should be collected to help understanding the gait pattern of PAD patients and build an extended dataset to be analyzed at a larger scale.

2020

Automatic detection of perforators for microsurgical reconstruction

Autores
Mavioso, C; Araujo, RJ; Oliveira, HP; Anacleto, JC; Vasconcelos, MA; Pinto, D; Gouveia, PF; Alves, C; Cardoso, F; Cardoso, JS; Cardoso, MJ;

Publicação
BREAST

Abstract
The deep inferior epigastric perforator (DIEP) is the most commonly used free flap in mastectomy reconstruction. Preoperative imaging techniques are routinely used to detect location, diameter and course of perforators, with direct intervention from the imaging team, who subsequently draw a chart that will help surgeons choosing the best vascular support for the reconstruction. In this work, the feasibility of using a computer software to support the preoperative planning of 40 patients proposed for breast reconstruction with a DIEP flap is evaluated for the first time. Blood vessel centreline extraction and local characterization algorithms are applied to identify perforators and compared with the manual mapping, aiming to reduce the time spent by the imaging team, as well as the inherent subjectivity to the task. Comparing with the measures taken during surgery, the software calibre estimates were worse for vessels smaller than 1.5 mm (P = 6e-4) but better for the remaining ones (P = 2e-3). Regarding vessel location, the vertical component of the software output was significantly different from the manual measure (P = 0.02), nonetheless that was irrelevant during surgery as errors in the order of 2-3 mm do not have impact in the dissection step. Our trials support that a reduction of the time spent is achievable using the automatic tool (about 2 h/case). The introduction of artificial intelligence in clinical practice intends to simplify the work of health professionals and to provide better outcomes to patients. This pilot study paves the way for a success story. (C) 2020 The Authors. Published by Elsevier Ltd.

2020

Automatic Lung Nodule Detection Combined With Gaze Information Improves Radiologists' Screening Performance

Autores
Aresta, G; Ferreira, C; Pedrosa, J; Araujo, T; Rebelo, J; Negrao, E; Morgado, M; Alves, F; Cunha, A; Ramos, I; Campilho, A;

Publicação
IEEE JOURNAL OF BIOMEDICAL AND HEALTH INFORMATICS

Abstract
Early diagnosis of lung cancer via computed tomography can significantly reduce the morbidity and mortality rates associated with the pathology. However, searching lung nodules is a high complexity task, which affects the success of screening programs. Whilst computer-aided detection systems can be used as second observers, they may bias radiologists and introduce significant time overheads. With this in mind, this study assesses the potential of using gaze information for integrating automatic detection systems in the clinical practice. For that purpose, 4 radiologists were asked to annotate 20 scans from a public dataset while being monitored by an eye tracker device, and an automatic lung nodule detection system was developed. Our results show that radiologists follow a similar search routine and tend to have lower fixation periods in regions where finding errors occur. The overall detection sensitivity of the specialists was 0.67 +/- 0.07, whereas the system achieved 0.69. Combining the annotations of one radiologist with the automatic system significantly improves the detection performance to similar levels of two annotators. Filtering automatic detection candidates only for low fixation regions still significantly improves the detection sensitivity without increasing the number of false-positives.

2020

Microaneurysm detection in color eye fundus images for diabetic retinopathy screening

Autores
Melo, T; Mendonca, AM; Campilho, A;

Publicação
COMPUTERS IN BIOLOGY AND MEDICINE

Abstract
Diabetic retinopathy (DR) is a diabetes complication, which in extreme situations may lead to blindness. Since the first stages are often asymptomatic, regular eye examinations are required for an early diagnosis. As microaneurysms (MAs) are one of the first signs of DR, several automated methods have been proposed for their detection in order to reduce the ophthalmologists' workload. Although local convergence filters (LCFs) have already been applied for feature extraction, their potential as MA enhancement operators was not explored yet. In this work, we propose a sliding band filter for MA enhancement aiming at obtaining a set of initial MA candidates. Then, a combination of the filter responses with color, contrast and shape information is used by an ensemble of classifiers for final candidate classification. Finally, for each eye fundus image, a score is computed from the confidence values assigned to the MAs detected in the image. The performance of the proposed methodology was evaluated in four datasets. At the lesion level, sensitivities of 64% and 81% were achieved for an average of 8 false positives per image (FPIs) in e-ophtha MA and SCREEN-DR, respectively. In the last dataset, an AUC of 0.83 was also obtained for DR detection.

2020

Vector Autoregressive Fractionally Integrated Models to Assess Multiscale Complexity in Cardiovascular and Respiratory Time Series

Autores
Martins, A; Amado, C; Rocha, AP; Silva, ME; Pernice, R; Javorka, M; Faes, L;

Publicação
2020 11TH CONFERENCE OF THE EUROPEAN STUDY GROUP ON CARDIOVASCULAR OSCILLATIONS (ESGCO): COMPUTATION AND MODELLING IN PHYSIOLOGY NEW CHALLENGES AND OPPORTUNITIES

Abstract
Cardiovascular variability is the result of the activity of several physiological control mechanisms, which involve different variables and operate across multiple time scales encompassing short term dynamics and long range correlations. This study presents a new approach to assess the multiscale complexity of multivariate time series, based on linear parametric models incorporating autoregressive coefficients and fractional integration. The approach extends to the multivariate case recent works introducing a linear parametric representation of multiscale entropy, and is exploited to assess the complexity of cardiovascular and respiratory time series in healthy subjects studied during postural and mental stress.

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