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Publications

Publications by LIAAD

2023

Which Way to Go - Finding Frequent Trajectories Through Clustering

Authors
Andrade, T; Gama, J;

Publication
Discovery Science - 26th International Conference, DS 2023, Porto, Portugal, October 9-11, 2023, Proceedings

Abstract
Trajectory clustering is one of the most important issues in mobility patterns data mining. It is applied in several cases such as hot-spots detection, urban transportation control, animal migration movements, and tourist visiting routes among others. In this paper, we describe how to identify the most frequent trajectories from raw GPS data. By making use of the Ramer-Douglas-Peucker (RDP) mechanism we simplify the trajectories in order to obtain fewer points to check without losing information. We construct a similarity matrix by using the Fréchet distance metric and then employ density-based clustering to find the most similar trajectories. We perform experiments over three real-world datasets collected in the city of Porto, Portugal, and in Beijing China, and check the results of the most frequent trajectories for the top-k origins x destinations for the moves. © 2023, The Author(s), under exclusive license to Springer Nature Switzerland AG.

2023

Bayesian Federated Learning: A Survey

Authors
Cao, L; Chen, H; Fan, X; Gama, J; Ong, YS; Kumar, V;

Publication
CoRR

Abstract
Federated learning (FL) demonstrates its advantages in integrating distributed infrastructure, communication, computing and learning in a privacy-preserving manner. However, the robustness and capabilities of existing FL methods are challenged by limited and dynamic data and conditions, complexities including heterogeneities and uncertainties, and analytical explainability. Bayesian federated learning (BFL) has emerged as a promising approach to address these issues. This survey presents a critical overview of BFL, including its basic concepts, its relations to Bayesian learning in the context of FL, and a taxonomy of BFL from both Bayesian and federated perspectives. We categorize and discuss client- and server-side and FL-based BFL methods and their pros and cons. The limitations of the existing BFL methods and the future directions of BFL research further address the intricate requirements of real-life FL applications.

2023

Knowledge-driven Analytics and Systems Impacting Human Quality of Life- Neurosymbolic AI, Explainable AI and Beyond

Authors
Ukil, A; Gama, J; Jara, AJ; Marin, L;

Publication
PROCEEDINGS OF THE 32ND ACM INTERNATIONAL CONFERENCE ON INFORMATION AND KNOWLEDGE MANAGEMENT, CIKM 2023

Abstract
The management of knowledge-driven artificial intelligence technologies is essential in order to evaluate their impact on human life and society. Social networks and tech use can have a negative impact on us physically, emotionally, socially and mentally. On the other hand, intelligent systems can have a positive effect on people's lives. Currently, we are witnessing the power of large language models (LLMs) like chatGPT and its influence towards the society. The objective of the workshop is to contribute to the advancement of intelligent technologies designed to address the human condition. This could include precise and personalized medicine, better care for elderly people, reducing private data leaks, using AI to manage resources better, using AI to predict risks, augmenting human capabilities, and more. The workshop's objective is to present research findings and perspectives that demonstrate how knowledge-enabled technologies and applications improve human well-being. This workshop indeed focuses on the impacts at different granularity levels made by Artificial Intelligence (AI) research on the micro granular level, where the daily or regular functioning of human life is affected, and also the macro granulate level, where the long-term or far-future effects of artificial intelligence on people's lives and the human society could be pretty high. In conclusion, this workshop explores how AI research can potentially address the most pressing challenges facing modern societies, and how knowledge management can potentially contribute to these solutions.

2023

Improving hyper-parameter self-tuning for data streams by adapting an evolutionary approach

Authors
Moya, AR; Veloso, B; Gama, J; Ventura, S;

Publication
DATA MINING AND KNOWLEDGE DISCOVERY

Abstract
Hyper-parameter tuning of machine learning models has become a crucial task in achieving optimal results in terms of performance. Several researchers have explored the optimisation task during the last decades to reach a state-of-the-art method. However, most of them focus on batch or offline learning, where data distributions do not change arbitrarily over time. On the other hand, dealing with data streams and online learning is a challenging problem. In fact, the higher the technology goes, the greater the importance of sophisticated techniques to process these data streams. Thus, improving hyper-parameter self-tuning during online learning of these machine learning models is crucial. To this end, in this paper, we present MESSPT, an evolutionary algorithm for self-hyper-parameter tuning for data streams. We apply Differential Evolution to dynamically-sized samples, requiring a single pass-over of data to train and evaluate models and choose the best configurations. We take care of the number of configurations to be evaluated, which necessarily has to be reduced, thus making this evolutionary approach a micro-evolutionary one. Furthermore, we control how our evolutionary algorithm deals with concept drift. Experiments on different learning tasks and over well-known datasets show that our proposed MESSPT outperforms the state-of-the-art on hyper-parameter tuning for data streams.

2023

Idioblasts accumulating anticancer alkaloids in Catharanthus roseus leaves are a unique cell type

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

Publication

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 specialised 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 characterised. 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 with surrounding mesophyll cells. Moreover, it is shown that idioblasts are a hotspot of alkaloid accumulation, suggesting that their transcriptome may hold the keys to the in-depth understanding of the MIA pathway and the success of strategies leading to higher levels of the anticancer drugs.

2023

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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