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Publications

Publications by Miguel Coimbra

2019

Active Contours Based Segmentation and Lesion Periphery Analysis for Characterization of Skin Lesions in Dermoscopy Images

Authors
Riaz, F; Naeem, S; Nawaz, R; Coimbra, M;

Publication
IEEE JOURNAL OF BIOMEDICAL AND HEALTH INFORMATICS

Abstract
This paper proposes a computer assisted diagnostic system for the detection of melanoma in dermoscopy images. Clinical findings have concluded that in case of melanoma, the lesion borders exhibit differential structures such as pigment networks and streaks as opposed to normal skin spots, which have smoother borders. We aim at validating these findings by performing segmentation of the skin lesions followed by an extraction of the peripheral region of the lesion that is subjected to feature extraction and classification for detecting melanoma. For segmentation, we propose a novel active contours based method that takes an initial lesion contour followed by the usage of Kullback-Leibler divergence between the lesion and skin to fit a curve to the lesion boundaries. After segmentation of the lesion, its periphery is extracted to detect melanoma using image features that are based on local binary patterns. For validation of our algorithms, we have used the publicly available PH2 and ISIC dermoscopy datasets. An extensive experimental analysis reveals two important findings: 1) the proposed segmentation method mimics the ground truth data; and 2) the most significant melanoma characteristics in the lesion actually lie on the lesion periphery.

2019

Virtual M-Mode for Echocardiography: A New Approach for the Segmentation of the Anterior Mitral Leaflet

Authors
Sultan, MS; Martins, N; Costa, E; Veiga, D; Ferreira, MJ; Mattos, S; Coimbra, MT;

Publication
IEEE JOURNAL OF BIOMEDICAL AND HEALTH INFORMATICS

Abstract
Rheumatic heart disease can result from repeated episodes of acute rheumatic fever, which damages the heart valves and reduces their functionality. Early manifestations of heart valve damage are visible in echocardiography in the form of valve thickening, shape changing and mobility reduction. The quantification of these features is important for a precise diagnosis and it is the main motivation for this work. The first step to make this quantification is to accurately identify and track the anterior mitral leaflet throughout the cardiac cycle. An accurate segmentation and tracking with minimum user interaction is still an open problem in literature due to low image quality, speckle noise, signal dropout and nonrigid deformations. In this work, we propose a novel approach for the identification of the anterior mitral valve leaflet in all frames. The method requires a single user-specified point on the posterior wall of the aorta as input, in the first frame. The echocardiography videos are converted into a new image space, the Virtual M-mode, which samples the original echocardiography image over automatically estimated scanning lines. This new image space not only provides the motion pattern of the posterior wall of the aorta, the anterior wall of the aorta and the posterior wall of the left atrium, but also provides the location of the structures in each frame. The location information is then used to initialize the localized active contours, followed by segmenting the anterior mitral leaflet. Results shown that the new image space has robustly identified the anterior mitral valve leaflet, without any failure. The median modified Hausdorff distance error of the proposed method was 2.3 mm, with a recall of 0.94.

2016

Tracking of the Anterior Mitral Leaflet in Echocardiographic Sequences using Active Contours

Authors
Sultan, MS; Martins, N; Veiga, D; Ferreira, MJ; Coimbra, MT;

Publication
2016 38TH ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY (EMBC)

Abstract
Echocardiography assessment of cardiac valves plays a vital role in the diagnosis of rheumatic heart disease. In the vast majority of cases, the mitral valve gets affected, leading to the thickening of its leaflets that may result in the fusion of their tips. This changes the appearance and reduces the mobility of the leaflets, which also reduce the heart efficiency. Quantifying such parameters provides diagnostic insight. To achieve that, the first step is to identify and then track fast moving leaflets. This work is focused on Anterior Mitral Leaflet (AML) tracking. Open ended active contours are employed in this work by removing its boundary conditions. The external and internal energy of the contour is modified that extend the capture range, improve snake energy and encourages the leftmost end point of the contour to converge on the moving tip of the AML. Results show that contour points are tracked accurately with an average error of 4.9 pixels and a standard deviation of 2.1 pixels in 9 fully annotated normal sequences of real children clinical assessments.

2016

The Effect of Data Exchange Protocols on Decision Support Systems for Heart Sounds

Authors
Gomes, P; Faria, S; Coimbra, M;

Publication
2016 38TH ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY (EMBC)

Abstract
Heart auscultation is one of the basic exams performed during a patient physical examination, but it is also one that has a high skill ceiling. Decision support systems can provide physicians with a tool that can help to reduce the demanding skill requirements of this exam. Nevertheless, this second opinion needs to be delivered in a timely interval in order to be truly useful for a physician. To do this we need not only optimized algorithms, but also a well designed system. In this paper, we have studied how two different data exchange protocols, that define how data should be transferred from an acquisition to a process module, can impact the celerity of delivering second opinion to a physician. With data collected from real exams, acquired in a field hospital initiative in Brazil, we recreated two use cases that allowed us to measure performance in the form of time and resources spent, as well as power consumption. Results have shown that different data exchange protocols can have a significant impact on a decision support system response time.

2015

Segmentation of Bones & MCP Joint Region of the Hand from Ultrasound Images

Authors
Sultan, MS; Martins, N; Ferreira, MJ; Coimbra, MT;

Publication
2015 37TH ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY (EMBC)

Abstract
Rheumatic arthritis (RA) is an autoimmune disease that causes irreversible damage to joints and other physiological structures. The Metacarpophalangeal (MCP) joint is one of the first regions to suffer alterations. These alterations are visible with high frequency ultrasound devices, which are used to quantify inflammatory activity in the MCP due to RA. The accurate segmentation of the bone surface and the identification of the MCP capsule region remains a challenge in ultrasound image processing. In this article we aim to make a contribution to this problem by incorporating prior knowledge of the bone and joint regions anatomy into our segmentation algorithm. The log Gabor filter is used for speckle noise reduction and to extract ridge-like structures from the images, while the phase is left unchanged. After thresholding, scores are generated, based on the intensities and areas of the resulting regions, enabling the selection of the structure that best matches the bone. Finally, segmented joint bones are processed to calculate the initial seeds of joint capsule region. Experimental results demonstrate the accuracy of the proposed segmentation algorithm. The mean pixel error between the automatic segmentation and the reference images were 4.4 pixel. The bone regions not segmented were, on average, 5.4%.

2017

Understanding the Energy Saving Potential of Smart Scale Selection in the Viola and Jones Facial Detection Algorithm

Authors
Pérez, N; Faria, S; Coimbra, MT;

Publication
Proceedings of the 10th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2017) - Volume 2: BIOIMAGING, Porto, Portugal, February 21-23, 2017.

Abstract

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