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Publications

2024

Deep Learning-Based Hip Detection in Pelvic Radiographs

Authors
Loureiro, C; Filipe, V; Franco-Gonçalo, P; Pereira, AI; Colaço, B; Alves-Pimenta, S; Ginja, M; Gonçalves, L;

Publication
OPTIMIZATION, LEARNING ALGORITHMS AND APPLICATIONS, PT II, OL2A 2023

Abstract
Radiography is the primary modality for diagnosing canine hip dysplasia (CHD), with visual assessment of radiographic features sometimes used for accurate diagnosis. However, these features typically constitute small regions of interest (ROI) within the overall image, yet they hold vital diagnostic information and are crucial for pathological analysis. Consequently, automated detection of ROIs becomes a critical preprocessing step in classification or segmentation systems. By correctly extracting the ROIs, the efficiency of retrieval and identification of pathological signs can be significantly improved. In this research study, we employed the most recent iteration of the YOLO (version 8) model to detect hip joints in a dataset of 133 pelvic radiographs. The best-performing model achieved a mean average precision (mAP50:95) of 0.81, indicating highly accurate detection of hip regions. Importantly, this model displayed feasibility for training on a relatively small dataset and exhibited promising potential for various medical applications.

2024

Calibration and Modeling of the Semmes-Weinstein Monofilament for Diabetic Foot Management

Authors
Castro-Martins, P; Pinto-Coelho, L; Campilho, RDSG;

Publication
BIOENGINEERING-BASEL

Abstract
Diabetic foot is a serious complication that poses significant risks for diabetic patients. The resulting reduction in protective sensitivity in the plantar region requires early detection to prevent ulceration and ultimately amputation. The primary method employed for evaluating this sensitivity loss is the 10 gf Semmes-Weinstein monofilament test, commonly used as a first-line procedure. However, the lack of calibration in existing devices often introduces decision errors due to unreliable feedback. In this article, the mechanical behavior of a monofilament was analytically modeled, seeking to promote awareness of the impact of different factors on clinical decisions. Furthermore, a new device for the automation of the metrological evaluation of the monofilament is described. Specific testing methodologies, used for the proposed equipment, are also described, creating a solid base for the establishment of future calibration guidelines. The obtained results showed that the tested monofilaments had a very high error compared to the 10 gf declared by the manufacturers. To improve the precision and reliability of assessing the sensitivity loss, the frequent metrological calibration of the monofilament is crucial. The integration of automated verification, simulation capabilities, and precise measurements shows great promise for diabetic patients, reducing the likelihood of adverse outcomes.

2024

Flow Correlation Attacks on Tor Onion Service Sessions with Sliding Subset Sum

Authors
Lopes, D; Dong, JD; Medeiros, P; Castro, D; Barradas, D; Portela, B; Vinagre, J; Ferreira, B; Christin, N; Santos, N;

Publication
31st Annual Network and Distributed System Security Symposium, NDSS 2024, San Diego, California, USA, February 26 - March 1, 2024

Abstract

2024

Modelling Concept Drift in Dynamic Data Streams for Recommender Systems

Authors
Caroprese, L; Pisani, F; Veloso, BM; Konig, M; Manco, G; Hoos, H; Gama, J;

Publication
ACM Transactions on Recommender Systems

Abstract
Recommendation systems play a crucial role in modern e-commerce and streaming services. However, the limited availability of public datasets hampers the rapid development of more efficient and accurate recommendation algorithms within the research community. This work introduces a stream-based data generator designed to generate user preferences for a set of items while accommodating progressive changes in user preferences. The underlying principle involves using user/item embeddings to derive preferences by exploring the proximity of these embeddings. Whether randomly generated or learned from a real finite data stream, these embeddings serve as the basis for generating new preferences. We investigate how this fundamental model can adapt to shifts in user behavior over time; in our framework, changes correspond to alterations in the structure of the tripartite graph, reflecting modifications in the underlying embeddings. Through an analysis of real-life data streams, we demonstrate that the proposed model is effective in capturing actual preferences and the changes that they can exhibit over time. Thus, we characterize these changes and develop a generalized method capable of simulating realistic data, thereby generating streams with similar yet controllable drift dynamics.

2024

Simplified model(s) of the GRAVITY plus adaptive optics system(s) for performance prediction

Authors
Berdeu, A; Le Bouquin, JB; Melia, G; Bourgès, L; Berger, JP; Bourdarot, G; Paumard, T; Eisenhauer, F; Straubmeier, C; Garcia, P; Hönig, S; Millour, F; Kreidberg, L; Defrere, D; Soulez, F; Shimizu, T;

Publication
ADAPTIVE OPTICS SYSTEMS IX

Abstract
In the context of the GRAVITY+ upgrade, the adaptive optics (AO) systems of the GRAVITY interferometer are undergoing a major lifting. The current CILAS deformable mirrors (DM, 90 actuators) will be replaced by ALPAO kilo-DMs (43x43, 1432 actuators). On top of the already existing 9x9 Shack-Hartmann wavefront sensors (SH-WFS) for infrared (IR) natural guide star (NGS), new 40x40 SH-WFSs for visible (VIS) NGS will be deployed. Lasers will also be installed on the four units of the Very Large Telescope to provide a laser guide star (LGS) option with 30x30 SH-WFSs and with the choice to either use the 9x9 IR-WFSs or 2x2 VIS-WFSs for low order sensing. Thus, four modes will be available for the GRAVITY+ AO system (GPAO): IR-NGS, IR-LGS, VIS-NGS and VIS-LGS. To prepare the instrument commissioning and help the observers to plan their observations, a tool is needed to predict the performances of the different modes and for different observing conditions (NGS magnitude, science object magnitude, turbulence conditions,...). We developed models based on a Mar ' echal approximation to predict the Strehl ratio of the four GPAO modes in order to feed the already existing tool that simulates the GRAVITY performances. Waiting for commissioning data, our model was validated and calibrated using the TIPTOP toolbox, a Point Spread Function simulator based on the computation of Power Spectrum Densities. In this work, we present our models of the NGS modes of GPAO and their calibration with TIPTOP.

2024

The leaf idioblastome of the medicinal plant Catharanthus roseus is associated with stress resistance and alkaloid metabolism

Authors
Guedes, JG; Ribeiro, R; Carqueijeiro, I; Guimaraes, AL; Bispo, C; Archer, J; Azevedo, H; Fonseca, NA; Sottomayor, M;

Publication
JOURNAL OF EXPERIMENTAL BOTANY

Abstract
Catharanthus roseus leaves produce a range of monoterpenoid indole alkaloids (MIAs) that include low levels of the anticancer drugs vinblastine and vincristine. The MIA pathway displays a complex architecture spanning different subcellular and cell type localizations, and is under complex regulation. As a result, the development of strategies to increase the levels of the anticancer MIAs has remained elusive. The pathway involves mesophyll specialized idioblasts where the late unsolved biosynthetic steps are thought to occur. Here, protoplasts of C. roseus leaf idioblasts were isolated by fluorescence-activated cell sorting, and their differential alkaloid and transcriptomic profiles were characterized. This involved the assembly of an improved C. roseus transcriptome from short- and long-read data, IDIO+. It was observed that C. roseus mesophyll idioblasts possess a distinctive transcriptomic profile associated with protection against biotic and abiotic stresses, and indicative that this cell type is a carbon sink, in contrast to surrounding mesophyll cells. Moreover, it is shown that idioblasts are a hotspot of alkaloid accumulation, suggesting that their transcriptome may hold the key to the in-depth understanding of the MIA pathway and the success of strategies leading to higher levels of the anticancer drugs. Catharanthus mesophyll idioblasts are a hotspot of alkaloid accumulation. The idioblast transcriptome is associated with stress responses and provides a roadmap towards the increase of anticancer alkaloid levels.

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