arXiv subjects

Tiago Azevedo

Publications and source records attributed to Tiago Azevedo.

12 recordsLinked to original sources

arXiv2026

Geometry-Guided Generative Representation for Functional Brain Graphs

In network neuroscience, functional brain systems are often characterized using separate yet related graph-theoretic or spectral descriptors, overlooking how these properties covary and partially overlap across individuals and conditions. We anticipate that dense, weighted functional connectivity graphs lie on a low-dimensional latent geometry along which both topological and spectral structures vary smoothly at the population level. Although graph-based deep learning offers a powerful framework for modeling these brain connectomes, supervised approaches are constrained by the limited availability of labeled data. Existing unsupervised graph representation methods also typically focus on node-level embeddings, which are limited in capturing compact graph-level representations that preserve information from dense functional connectomes. To address these gaps, we learn compact brain graph representations using a graph transformer autoencoder, where domain-specific, aligned functional gradient geometry provides an inductive bias to guide learning. Despite being trained in a fully unsupervised manner, our approach meaningfully separates cognitive states and enables decoding of visual stimuli, with performance further improved by incorporating neural dynamics. In parallel, to enable generation of synthetic brain graphs, we fit a diffusion model to the learned latent representation and decode samples back to dense connectomes.

q-bio.NC↗

arXiv2026

A Monosemantic Attribution Framework for Stable Interpretability in Clinical Neuroscience Transformer-Based Language Models

Interpretability remains a key challenge for deploying language models (LM) in clinical settings such as progression diagnosis of Alzheimer disease, where early and trustworthy predictions are essential. Existing attribution methods exhibit high inter-method variability and unstable explanations due to the polysemantic nature of Transformer-Based LM and LLM representations, while mechanistic interpretability approaches lack direct alignment with model inputs and outputs and do not provide explicit importance scores. We introduce a unified interpretability framework that integrates attributional and mechanistic perspectives through monosemantic feature extraction. By constructing a monosemantic embedding space at the level of an transformer-based LM layer and optimizing the framework to explicitly reduce inter-method variability, our approach produces stable input-level importance scores and highlights salient features via a decompressed representation of the layer of interest, advancing the safe and trustworthy application of LMs in cognitive health and neurodegenerative disease.

cs.CL↗

arXiv2026

RamanSeg: Interpretability-driven Deep Learning on Raman Spectra for Cancer Diagnosis

Histopathology, the current gold standard for cancer diagnosis, involves the manual examination of tissue samples after chemical staining, a time-consuming process requiring expert analysis. Raman spectroscopy is an alternative, stain-free method of extracting information from samples. Using nnU-Net, we trained a segmentation model on a novel dataset of spatial Raman spectra aligned with tumour annotations, achieving a mean foreground Dice score of 80.9%, surpassing previous work. Furthermore, we propose a novel, interpretable, prototype-based architecture called RamanSeg. RamanSeg classifies pixels based on discovered regions of the training set, generating a segmentation mask. Two variants of RamanSeg allow a trade-off between interpretability and performance: one with prototype projection and another projection-free version. The projection-free RamanSeg outperformed a U-Net baseline with a mean foreground Dice score of 67.3%, offering a meaningful improvement over a black-box training approach.

eess.IV↗

arXiv2024

Artificial Intelligence-powered fossil shark tooth identification: Unleashing the potential of Convolutional Neural Networks

All fields of knowledge are being impacted by Artificial Intelligence. In particular, the Deep Learning paradigm enables the development of data analysis tools that support subject matter experts in a variety of sectors, from physics up to the recognition of ancient languages. Palaeontology is now observing this trend as well. This study explores the capability of Convolutional Neural Networks (CNNs), a particular class of Deep Learning algorithms specifically crafted for computer vision tasks, to classify images of isolated fossil shark teeth gathered from online datasets as well as from the authors$'$ experience on Peruvian Miocene and Italian Pliocene fossil assemblages. The shark taxa that are included in the final, composite dataset (which consists of more than one thousand images) are representative of both extinct and extant genera, namely, Carcharhinus, Carcharias, Carcharocles, Chlamydoselachus, Cosmopolitodus, Galeocerdo, Hemipristis, Notorynchus, Prionace and Squatina. We developed a CNN, named SharkNet-X, specifically tailored on our recognition task, reaching a 5-fold cross validated mean accuracy of 0.85 to identify images containing a single shark tooth. Furthermore, we elaborated a visualization of the features extracted from images using the last dense layer of the CNN, achieved through the application of the clustering technique t-SNE. In addition, in order to understand and explain the behaviour of the CNN while giving a paleontological point of view on the results, we introduced the explainability method SHAP. To the best of our knowledge, this is the first instance in which this method is applied to the field of palaeontology. The main goal of this work is to showcase how Deep Learning techniques can aid in identifying isolated fossil shark teeth, paving the way for developing new information tools for automating the recognition and classification of fossils.

cs.CV↗

arXiv2021

An Underexplored Dilemma between Confidence and Calibration in Quantized Neural Networks

Modern convolutional neural networks (CNNs) are known to be overconfident in terms of their calibration on unseen input data. That is to say, they are more confident than they are accurate. This is undesirable if the probabilities predicted are to be used for downstream decision making. When considering accuracy, CNNs are also surprisingly robust to compression techniques, such as quantization, which aim to reduce computational and memory costs. We show that this robustness can be partially explained by the calibration behavior of modern CNNs, and may be improved with overconfidence. This is due to an intuitive result: low confidence predictions are more likely to change post-quantization, whilst being less accurate. High confidence predictions will be more accurate, but more difficult to change. Thus, a minimal drop in post-quantization accuracy is incurred. This presents a potential conflict in neural network design: worse calibration from overconfidence may lead to better robustness to quantization. We perform experiments applying post-training quantization to a variety of CNNs, on the CIFAR-100 and ImageNet datasets.

cs.LG↗

arXiv2021

On Efficient Uncertainty Estimation for Resource-Constrained Mobile Applications

Deep neural networks have shown great success in prediction quality while reliable and robust uncertainty estimation remains a challenge. Predictive uncertainty supplements model predictions and enables improved functionality of downstream tasks including embedded and mobile applications, such as virtual reality, augmented reality, sensor fusion, and perception. These applications often require a compromise in complexity to obtain uncertainty estimates due to very limited memory and compute resources. We tackle this problem by building upon Monte Carlo Dropout (MCDO) models using the Axolotl framework; specifically, we diversify sampled subnetworks, leverage dropout patterns, and use a branching technique to improve predictive performance while maintaining fast computations. We conduct experiments on (1) a multi-class classification task using the CIFAR10 dataset, and (2) a more complex human body segmentation task. Our results show the effectiveness of our approach by reaching close to Deep Ensemble prediction quality and uncertainty estimation, while still achieving faster inference on resource-limited mobile platforms.

cs.LG↗

arXiv2021

Towards Efficient Point Cloud Graph Neural Networks Through Architectural Simplification

In recent years graph neural network (GNN)-based approaches have become a popular strategy for processing point cloud data, regularly achieving state-of-the-art performance on a variety of tasks. To date, the research community has primarily focused on improving model expressiveness, with secondary thought given to how to design models that can run efficiently on resource constrained mobile devices including smartphones or mixed reality headsets. In this work we make a step towards improving the efficiency of these models by making the observation that these GNN models are heavily limited by the representational power of their first, feature extracting, layer. We find that it is possible to radically simplify these models so long as the feature extraction layer is retained with minimal degradation to model performance; further, we discover that it is possible to improve performance overall on ModelNet40 and S3DIS by improving the design of the feature extractor. Our approach reduces memory consumption by 20$\times$ and latency by up to 9.9$\times$ for graph layers in models such as DGCNN; overall, we achieve speed-ups of up to 4.5$\times$ and peak memory reductions of 72.5%.

cs.CV↗

arXiv2020

Stochastic-YOLO: Efficient Probabilistic Object Detection under Dataset Shifts

In image classification tasks, the evaluation of models' robustness to increased dataset shifts with a probabilistic framework is very well studied. However, object detection (OD) tasks pose other challenges for uncertainty estimation and evaluation. For example, one needs to evaluate both the quality of the label uncertainty (i.e., what?) and spatial uncertainty (i.e., where?) for a given bounding box, but that evaluation cannot be performed with more traditional average precision metrics (e.g., mAP). In this paper, we adapt the well-established YOLOv3 architecture to generate uncertainty estimations by introducing stochasticity in the form of Monte Carlo Dropout (MC-Drop), and evaluate it across different levels of dataset shift. We call this novel architecture Stochastic-YOLO, and provide an efficient implementation to effectively reduce the burden of the MC-Drop sampling mechanism at inference time. Finally, we provide some sensitivity analyses, while arguing that Stochastic-YOLO is a sound approach that improves different components of uncertainty estimations, in particular spatial uncertainties.

cs.CV↗

arXiv2020

Towards a predictive spatio-temporal representation of brain data

The characterisation of the brain as a "connectome", in which the connections are represented by correlational values across timeseries and as summary measures derived from graph theory analyses, has been very popular in the last years. However, although this representation has advanced our understanding of the brain function, it may represent an oversimplified model. This is because the typical fMRI datasets are constituted by complex and highly heterogeneous timeseries that vary across space (i.e., location of brain regions). We compare various modelling techniques from deep learning and geometric deep learning to pave the way for future research in effectively leveraging the rich spatial and temporal domains of typical fMRI datasets, as well as of other similar datasets. As a proof-of-concept, we compare our approaches in the homogeneous and publicly available Human Connectome Project (HCP) dataset on a supervised binary classification task. We hope that our methodological advances relative to previous "connectomic" measures can ultimately be clinically and computationally relevant by leading to a more nuanced understanding of the brain dynamics in health and disease. Such understanding of the brain can fundamentally reduce the constant specialised clinical expertise in order to accurately understand brain variability.

cs.LG↗

arXiv2016

A State-of-the-art Integrated Transportation Simulation Platform

Nowadays, universities and companies have a huge need for simulation and modelling methodologies. In the particular case of traffic and transportation, making physical modifications to the real traffic networks could be highly expensive, dependent on political decisions and could be highly disruptive to the environment. However, while studying a specific domain or problem, analysing a problem through simulation may not be trivial and may need several simulation tools, hence raising interoperability issues. To overcome these problems, we propose an agent-directed transportation simulation platform, through the cloud, by means of services. We intend to use the IEEE standard HLA (High Level Architecture) for simulators interoperability and agents for controlling and coordination. Our motivations are to allow multiresolution analysis of complex domains, to allow experts to collaborate on the analysis of a common problem and to allow co-simulation and synergy of different application domains. This paper will start by presenting some preliminary background concepts to help better understand the scope of this work. After that, the results of a literature review is shown. Finally, the general architecture of a transportation simulation platform is proposed.

cs.MA↗

arXiv2016

JADE, TraSMAPI and SUMO: A tool-chain for simulating traffic light control

Increased stress, fuel consumption, air pollution, accidents and delays are some of the consequences of traffic congestion usually incurring in tremendous economic impacts, which society aims to remedy in order to leverage a sustainable development. Recently, unconventional means for modeling and controlling such complex traffic systems relying on multi-agent systems have arisen. This paper contributes to the understanding of such complex and highly dynamic systems by proposing an open-source tool-chain to implement multi-agent-based solutions in traffic and transportation. The proposed approach relies on two very popular tools in both domains, with focus on traffic light control. This tool-chain consists in combining JADE (Java Agent DEvelopment Framework), for the implementation of multi-agent systems, with SUMO (Simulation of Urban MObility), for the microscopic simulation of traffic interactions. TraSMAPI (Traffic Simulation Manager Application Programming Interface) is used to combine JADE and SUMO allowing communication between them. A demonstration of the concept is presented to illustrate the main features of this tool-chain, using Q-Learning as the reinforcement learning method for each traffic light agent in a simulated network. Results demonstrate the feasibility of the proposed framework as a practical means to experiment with different agent-based designs of intelligent transportation solutions.

cs.MA↗

arXiv2016

Densifying the sparse cloud SimSaaS: The need of a synergy among agent-directed simulation, SimSaaS and HLA

Modelling & Simulation (M&S) is broadly used in real scenarios where making physical modifications could be highly expensive. With the so-called Simulation Software-as-a-Service (SimSaaS), researchers could take advantage of the huge amount of resource that cloud computing provides. Even so, studying and analysing a problem through simulation may need several simulation tools, hence raising interoperability issues. Having this in mind, IEEE developed a standard for interoperability among simulators named High Level Architecture (HLA). Moreover, the multi-agent system approach has become recognised as a convenient approach for modelling and simulating complex systems. Despite all the recent works and acceptance of these technologies, there is still a great lack of work regarding synergies among them. This paper shows by means of a literature review this lack of work or, in other words, the sparse Cloud SimSaaS. The literature review and the resulting taxonomy are the main contributions of this paper, as they provide a research agenda illustrating future research opportunities and trends.

cs.MA↗