arXiv subjects

Filipe Barata

Publications and source records attributed to Filipe Barata.

8 recordsLinked to original sources

arXiv2026

Vocal Prognostic Digital Biomarkers in Monitoring Chronic Heart Failure: A Longitudinal Observational Study

Objective: This study aimed to evaluate which voice features can predict health deterioration in patients with chronic HF. Background: Heart failure (HF) is a chronic condition with progressive deterioration and acute decompensations, often requiring hospitalization and imposing substantial healthcare and economic burdens. Current standard-of-care (SoC) home monitoring, such as weight tracking, lacks predictive accuracy and requires high patient engagement. Voice is a promising non-invasive biomarker, though prior studies have mainly focused on acute HF stages. Methods: In a 2-month longitudinal study, 32 patients with HF collected daily voice recordings and SoC measures of weight and blood pressure at home, with biweekly questionnaires for health status. Acoustic analysis generated detailed vowel and speech features. Time-series features were extracted from aggregated lookback windows (e.g., 7 days) to predict next-day health status. Explainable machine learning with nested cross-validation identified top vocal biomarkers, and a case study illustrated model application. Results: A total of 21,863 recordings were analyzed. Acoustic vowel features showed strong correlations with health status. Time-series voice features within the lookback window outperformed corresponding standard care measures, achieving peak sensitivity and specificity of 0.826 and 0.782 versus 0.783 and 0.567 for SoC metrics. Key prognostic voice features identifying deterioration included delayed energy shift, low energy variability, and higher shimmer variability in vowels, along with reduced speaking and articulation rate, lower phonation ratio, decreased voice quality, and increased formant variability in speech. Conclusion: Voice-based monitoring offers a non-invasive approach to detect early health changes in chronic HF, supporting proactive and personalized care.

cs.SD↗

arXiv2026

EvoMorph: Counterfactual Explanations for Continuous Time-Series Extrinsic Regression Applied to Photoplethysmography

Wearable devices enable continuous, population-scale monitoring of physiological signals, such as photoplethysmography (PPG), creating new opportunities for data-driven clinical assessment. Time-series extrinsic regression (TSER) models increasingly leverage PPG signals to estimate clinically relevant outcomes, including heart rate, respiratory rate, and oxygen saturation. For clinical reasoning and trust, however, single point estimates alone are insufficient: clinicians must also understand whether predictions are stable under physiologically plausible variations and to what extent realistic, attainable changes in physiological signals would meaningfully alter a model's prediction. Counterfactual explanations (CFE) address these "what-if" questions, yet existing time series CFE generation methods are largely restricted to classification, overlook waveform morphology, and often produce physiologically implausible signals, limiting their applicability to continuous biomedical time series. To address these limitations, we introduce EvoMorph, a multi-objective evolutionary framework for generating physiologically plausible and diverse CFE for TSER applications. EvoMorph optimizes morphology-aware objectives defined on interpretable signal descriptors and applies transformations to preserve the waveform structure. We evaluated EvoMorph on three PPG datasets (heart rate, respiratory rate, and oxygen saturation) against a nearest-unlike-neighbor baseline. In addition, in a case study, we evaluated EvoMorph as a tool for uncertainty quantification by relating counterfactual sensitivity to bootstrap-ensemble uncertainty and data-density measures. Overall, EvoMorph enables the generation of physiologically-aware counterfactuals for continuous biomedical signals and supports uncertainty-aware interpretability, advancing trustworthy model analysis for clinical time-series applications.

cs.LG↗

arXiv2025

OpenTSLM: Time-Series Language Models for Reasoning over Multivariate Medical Text- and Time-Series Data

LLMs have emerged as powerful tools for interpreting multimodal data. In medicine, they hold particular promise for synthesizing large volumes of clinical information into actionable insights and digital health applications. Yet, a major limitation remains their inability to handle time series. To overcome this gap, we present OpenTSLM, a family of Time Series Language Models (TSLMs) created by integrating time series as a native modality to pretrained LLMs, enabling reasoning over multiple time series of any length. We investigate two architectures for OpenTSLM. The first, OpenTSLM-SoftPrompt, models time series implicitly by concatenating learnable time series tokens with text tokens via soft prompting. Although parameter-efficient, we hypothesize that explicit time series modeling scales better and outperforms implicit approaches. We thus introduce OpenTSLM-Flamingo, which integrates time series with text via cross-attention. We benchmark both variants against baselines that treat time series as text tokens or plots, across a suite of text-time-series Chain-of-Thought (CoT) reasoning tasks. We introduce three datasets: HAR-CoT, Sleep-CoT, and ECG-QA-CoT. Across all, OpenTSLM models outperform baselines, reaching 69.9 F1 in sleep staging and 65.4 in HAR, compared to 9.05 and 52.2 for finetuned text-only models. Notably, even 1B-parameter OpenTSLM models surpass GPT-4o (15.47 and 2.95). OpenTSLM-Flamingo matches OpenTSLM-SoftPrompt in performance and outperforms on longer sequences, while maintaining stable memory requirements. By contrast, SoftPrompt grows exponentially in memory with sequence length, requiring around 110 GB compared to 40 GB VRAM when training on ECG-QA with LLaMA-3B. Expert reviews by clinicians find strong reasoning capabilities exhibited by OpenTSLMs on ECG-QA. To facilitate further research, we provide all code, datasets, and models open-source.

cs.LG↗

arXiv2025

CosinorAge: Unified Python and Web Platform for Biological Age Estimation from Wearable- and Smartwatch-Based Activity Rhythms

Every day, millions of people worldwide track their steps, sleep, and activity rhythms with smartwatches and fitness trackers. These continuously collected data streams present a remarkable opportunity to transform routine self-tracking into meaningful health insights that enable individuals to understand -- and potentially influence -- their biological aging. Yet most tools for analyzing wearable data remain fragmented, proprietary, and inaccessible, creating a major barrier between this vast reservoir of personal health information and its translation into actionable insights on aging. CosinorAge is an open-source framework that estimates biological age from wearable-derived circadian, physical activity, and sleep metrics. It addresses the lack of unified, reproducible pipelines for jointly analyzing rest-activity rhythmicity, physical activity, and sleep, and linking them to health outcomes. The Python package provides an end-to-end workflow from raw data ingestion and preprocessing to feature computation and biological age estimation, supporting multiple input sources across wearables and smartwatch. It also makes available trained model parameters (open weights) derived from large-scale population datasets such as UK Biobank, enabling reproducibility, transparency, and generalizability across studies. Its companion web-based CosinorAge Calculator enables non-technical users to access identical analytical capabilities through an intuitive interface. By combining transparent, reproducible analysis with broad accessibility, CosinorAge advances scalable, personalized health monitoring and bridges digital health technologies with biological aging research.

cs.HC↗

arXiv2025

GeHirNet: A Gender-Aware Hierarchical Model for Voice Pathology Classification

AI-based voice analysis shows promise for disease diagnostics, but existing classifiers often fail to accurately identify specific pathologies because of gender-related acoustic variations and the scarcity of data for rare diseases. We propose a novel two-stage framework that first identifies gender-specific pathological patterns using ResNet-50 on Mel spectrograms, then performs gender-conditioned disease classification. We address class imbalance through multi-scale resampling and time warping augmentation. Evaluated on a merged dataset from four public repositories, our two-stage architecture with time warping achieves state-of-the-art performance (97.63\% accuracy, 95.25\% MCC), with a 5\% MCC improvement over single-stage baseline. This work advances voice pathology classification while reducing gender bias through hierarchical modeling of vocal characteristics.

cs.SD↗

arXiv2024

Comparative Efficacy of Commercial Wearables for Circadian Rhythm Home Monitoring from Activity, Heart Rate, and Core Body Temperature

Circadian rhythms govern biological patterns that follow a 24-hour cycle. Dysfunctions in circadian rhythms can contribute to various health problems, such as sleep disorders. Current circadian rhythm assessment methods, often invasive or subjective, limit circadian rhythm monitoring to laboratories. Hence, this study aims to investigate scalable consumer-centric wearables for circadian rhythm monitoring outside traditional laboratories. In a two-week longitudinal study conducted in real-world settings, 36 participants wore an Actigraph, a smartwatch, and a core body temperature sensor to collect activity, temperature, and heart rate data. We evaluated circadian rhythms calculated from commercial wearables by comparing them with circadian rhythm reference measures, i.e., Actigraph activities and chronotype questionnaire scores. The circadian rhythm metric acrophases, determined from commercial wearables using activity, heart rate, and temperature data, significantly correlated with the acrophase derived from Actigraph activities (r=0.96, r=0.87, r=0.79; all p<0.001) and chronotype questionnaire (r=-0.66, r=-0.73, r=-0.61; all p<0.001). The acrophases obtained concurrently from consumer sensors significantly predicted the chronotype (R2=0.64; p<0.001). Our study validates commercial sensors for circadian rhythm assessment, highlighting their potential to support maintaining healthy rhythms and provide scalable and timely health monitoring in real-life scenarios.

eess.SP↗

arXiv2023

CLAID: Closing the Loop on AI & Data Collection -- A Cross-Platform Transparent Computing Middleware Framework for Smart Edge-Cloud and Digital Biomarker Applications

The increasing number of edge devices with enhanced sensing capabilities, such as smartphones, wearables, and IoT devices equipped with sensors, holds the potential for innovative smart-edge applications in healthcare. These devices generate vast amounts of multimodal data, enabling the implementation of digital biomarkers which can be leveraged by machine learning solutions to derive insights, predict health risks, and allow personalized interventions. Training these models requires collecting data from edge devices and aggregating it in the cloud. To validate and verify those models, it is essential to utilize them in real-world scenarios and subject them to testing using data from diverse cohorts. Since some models are too computationally expensive to be run on edge devices directly, a collaborative framework between the edge and cloud becomes necessary. In this paper, we present CLAID, an open-source cross-platform middleware framework based on transparent computing compatible with Android, iOS, WearOS, Linux, macOS, and Windows. CLAID enables logical integration of devices running different operating systems into an edge-cloud system, facilitating communication and offloading between them, with bindings available in different programming languages. We provide Modules for data collection from various sensors as well as for the deployment of machine-learning models. Furthermore, we propose a novel methodology, "ML-Model in the Loop" for verifying deployed machine learning models, which helps to analyze problems that may occur during the migration of models from cloud to edge devices. We verify our framework in three different experiments and achieve 100% sampling coverage for data collection across different sensors as well as an equal performance of a cough detection model deployed on both Android and iOS devices. We evaluate the memory and battery consumption of our framework.

cs.DC↗

arXiv2019

Driver Identification via the Steering Wheel

Driver identification has emerged as a vital research field, where both practitioners and researchers investigate the potential of driver identification to enable a personalized driving experience. Within recent years, a selection of studies have reported that individuals could be perfectly identified based on their driving behavior under controlled conditions. However, research investigating the potential of driver identification under naturalistic conditions claim accuracies only marginally higher than random guess. The paper at hand provides a comprehensive summary of the recent work, highlighting the main discrepancies in the design of the machine learning approaches, primarily the window length parameter that was considered. Key findings further indicate that the longitudinal vehicle control information is particularly useful for driver identification, leaving the research gap on the extent to which the lateral vehicle control can be used for reliable identification. Building upon existing work, we provide a novel approach for the design of the window length parameter that provides evidence that reliable driver identification can be achieved with data limited to the steering wheel only. The results and insights in this paper are based on data collected from the largest naturalistic driving study conducted in this field. Overall, a neural network based on GRUs was found to provide better identification performance than traditional methods, increasing the prediction accuracy from under 15\% to over 65\% for 15 drivers. When leveraging the full field study dataset, comprising 72 drivers, the accuracy of identification prediction of the approach improved a random guess approach by a factor of 25.

stat.ML↗