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Publications

Publications by BIO

2021

The Role of Liquid Biopsy in Early Diagnosis of Lung Cancer

Authors
Freitas, C; Sousa, C; Machado, F; Serino, M; Santos, V; Cruz Martins, N; Teixeira, A; Cunha, A; Pereira, T; Oliveira, HP; Costa, JL; Hespanhol, V;

Publication
FRONTIERS IN ONCOLOGY

Abstract
Liquid biopsy is an emerging technology with a potential role in the screening and early detection of lung cancer. Several liquid biopsy-derived biomarkers have been identified and are currently under ongoing investigation. In this article, we review the available data on the use of circulating biomarkers for the early detection of lung cancer, focusing on the circulating tumor cells, circulating cell-free DNA, circulating micro-RNAs, tumor-derived exosomes, and tumor-educated platelets, providing an overview of future potential applicability in the clinical practice. While several biomarkers have shown exciting results, diagnostic performance and clinical applicability is still limited. The combination of different biomarkers, as well as their combination with other diagnostic tools show great promise, although further research is still required to define and validate the role of liquid biopsies in clinical practice.

2021

(INVITED)Classification of optically trapped particles: A comparison between optical fiber tweezers and conventional setups

Authors
Jorge, PAS; Carvalho, IA; Marques, FM; Pinto, V; Santos, PH; Rodrigues, SM; Faria, SP; Paiva, JS; Silva, NA;

Publication
Results in Optics

Abstract
The classification of the type of trapped particles is a crucial task for an efficient integration of optical-tweezers in intelligent microfluidic devices. In the recent years, the use of the temporal scattering signal of the trapped particle paved for the use of versatile optical fiber solutions for performing such tasks, a feature previously unavailable as most methods required conventional optical tweezer setups. This work presents a comprehensive comparison of performances achieved with two distinct implementations – i)optical fiber and ii)conventional optical tweezers – for the classification of the material of particles through the analysis of the scattering signal with machine learning algorithms. The results suggest that while micron-sized particles can be accurately classified using the forward scattering information in conventional optical tweezers, when equipped with a quadrant photodetector, the optical fiber tweezers solutions can easily surpass its performance using the back-scattered information if the laser is modulated. Together with the advantages of being simpler, less expensive and more versatile, the results presented suggest that optical fiber solutions can become a valuable tool for miniaturization and integration of intelligent microfluidic devices working towards nanoscopic scales. © 2021 The Authors

2021

MONITORIA: The start of a new era of ambulatory heart failure monitoring? Part I - Theoretical Rationale

Authors
Martins, C; da Silva, JM; Guimaraes, D; Martins, L; da Silva, MV;

Publication
REVISTA PORTUGUESA DE CARDIOLOGIA

Abstract
Heart failure (HF) is a multifactorial chronic syndrome with progressive increasing incidence causing a huge financial burden worldwide. Remote monitoring should, in theory, improve HF management, but given increasing morbidity and mortality, a question remains: are we monitoring it properly? Device-based home monitoring enables objective and continuous measurement of vital variables and non-invasive devices should be first choice for elderly patients. There is no shortage of literature on the subject, however, most studies were designed to monitor a single variable or class of variables that were not properly assembled and, to the best of our knowledge, there are no large randomized studies about their impact on HF patient management. To overcome this problem, we carefully selected the most critical possible HF decompensating factors to design MONITORIA, a non-invasive device for comprehensive HF home monitoring. MONITORIA stands for MOnitoring Non-Invasively To Overcome mortality Rates of heart Insufficiency on Ambulatory, and in this paper, which is part I of a series of three articles, we discuss the theoretical basis for its design. MONITORIA and its inherent follow-up strategy will optimize HF patient care as it is a promising device, which will essentially adapt innovation not to the disease but rather to the patients. (C) 2020 Sociedade Portuguesa de Cardiologia. Published by Elsevier Espana, S.L.U.

2021

Guest Editorial: BIOSIG 2020 special issue on trustworthiness of person authentication

Authors
Sequeira, AF; Gomez Barrero, M; Correia, PL;

Publication
IET BIOMETRICS

Abstract
[No abstract available]

2021

Multimodal Multi-tasking for Skin Lesion Classification Using Deep Neural Networks

Authors
Carvalho, R; Pedrosa, J; Nedelcu, T;

Publication
ADVANCES IN VISUAL COMPUTING (ISVC 2021), PT I

Abstract
Skin cancer is one of the most common types of cancer and, with its increasing incidence, accurate early diagnosis is crucial to improve prognosis of patients. In the process of visual inspection, dermatologists follow specific dermoscopic algorithms and identify important features to provide a diagnosis. This process can be automated as such characteristics can be extracted by computer vision techniques. Although deep neural networks can extract useful features from digital images for skin lesion classification, performance can be improved by providing additional information. The extracted pseudo-features can be used as input (multimodal) or output (multi-tasking) to train a robust deep learning model. This work investigates the multimodal and multi-tasking techniques for more efficient training, given the single optimization of several related tasks in the latter, and generation of better diagnosis predictions. Additionally, the role of lesion segmentation is also studied. Results show that multi-tasking improves learning of beneficial features which lead to better predictions, and pseudo-features inspired by the ABCD rule provide readily available helpful information about the skin lesion.

2021

Extracting neuronal activity signals from microscopy recordings of contractile tissue using B-spline Explicit Active Surfaces (BEAS) cell tracking

Authors
Kazwiny, Y; Pedrosa, J; Zhang, ZQ; Boesmans, W; D'hooge, J; Vanden Berghe, P;

Publication
SCIENTIFIC REPORTS

Abstract
Ca2+ imaging is a widely used microscopy technique to simultaneously study cellular activity in multiple cells. The desired information consists of cell-specific time series of pixel intensity values, in which the fluorescence intensity represents cellular activity. For static scenes, cellular signal extraction is straightforward, however multiple analysis challenges are present in recordings of contractile tissues, like those of the enteric nervous system (ENS). This layer of critical neurons, embedded within the muscle layers of the gut wall, shows optical overlap between neighboring neurons, intensity changes due to cell activity, and constant movement. These challenges reduce the applicability of classical segmentation techniques and traditional stack alignment and regions-of-interest (ROIs) selection workflows. Therefore, a signal extraction method capable of dealing with moving cells and is insensitive to large intensity changes in consecutive frames is needed. Here we propose a b-spline active contour method to delineate and track neuronal cell bodies based on local and global energy terms. We develop both a single as well as a double-contour approach. The latter takes advantage of the appearance of GCaMP expressing cells, and tracks the nucleus' boundaries together with the cytoplasmic contour, providing a stable delineation of neighboring, overlapping cells despite movement and intensity changes. The tracked contours can also serve as landmarks to relocate additional and manually-selected ROIs. This improves the total yield of efficacious cell tracking and allows signal extraction from other cell compartments like neuronal processes. Compared to manual delineation and other segmentation methods, the proposed method can track cells during large tissue deformations and high-intensity changes such as during neuronal firing events, while preserving the shape of the extracted Ca2+ signal. The analysis package represents a significant improvement to available Ca2+ imaging analysis workflows for ENS recordings and other systems where movement challenges traditional Ca2+ signal extraction workflows.

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