arXiv subjects

Giovanna Jona Lasinio

Publications and source records attributed to Giovanna Jona Lasinio.

At least 19 recordsLinked to original sources

arXiv2026

Bayesian spatio-temporal exposure modelling of air pollution in Rome, Italy, and short-term effects on cause-specific mortality

Assessing fine-scale spatio-temporal air pollution contrasts in urban contexts is a major challenge for environmental epidemiology. We propose a Bayesian spatio-temporal model to predict daily concentrations of NO$_2$, PM$_{10}$, and PM$_{2.5}$ in Rome (Italy), over 2011-2022, on a fine grid scale (1 km), using data from 8 to 13 monitoring stations, depending on pollutant. The model includes meteorological and temporal (working day/weekend) fixed effects together with a lag-1 autoregressive spatio-temporal random effect aimed at capturing spatial and daily dependence. Predictive performance was assessed by leave-one-site-out cross-validation. Estimated exposures were then linked to geolocated cause-specific mortality data for Rome (2012-2019), and a case-crossover time-stratified approach was adopted to investigate acute effects. Cross-validation showed good overall predictive performance, with larger errors at high-traffic sites. Estimated exposure (mean lag 0-5) was positively associated with natural-cause mortality, with percent increase in risk of 1.3 (95% CI: 0.6-2.0) for PM$_{10}$, 2.1 for NO$_2$ (1.4-2.9), and 2.4 for PM$_{2.5}$ (1.4-3.3) per 10 $μ$g/m$^3$ increase. Corresponding estimates when using the city-specific daily average exposure, instead of our 1 km resolution model, were of comparable magnitude. The proposed Bayesian spatio-temporal framework provides reliable fine-scale exposure estimates for epidemiological use, with results consistent across independent exposure estimates, supporting its application in urban air-pollution health studies.

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arXiv2026

Scalable model selection for count time series with structural breaks: application to solid-organ transplantation during and after COVID-19 in the USA and Italy

Weekly healthcare activity data are typically non-negative counts with temporal dependence and occasional system-wide disruptions, settings in which Gaussian time-series models may be inadequate. Solid organ transplant (SOT) activity provides a representative case study of a count process affected by a large external shock. We analyse weekly SOT counts in the USA and Italy from 2014 to October 2024, stratified by donor type (deceased vs living) and organ (kidney and liver). We fit Poisson and negative-binomial count time-series models incorporating short-term dynamics, calendar effects (holiday weeks), and pre-specified pandemic-period level and/or slope indicators. Candidate specifications are screened within a pre-defined portfolio and selected using BIC within each training window. Forecasting performance is evaluated with an expanding-window design at horizons $h\in\{4,8,12\}$ weeks. Alongside RMSE, we report empirical coverage of nominal $95\%$ predictive intervals and interval widths to summarise calibration and forecast uncertainty. Across strata, selected models capture substantial pandemic-period deviations and varying post-period trajectories. Deceased-donor series are broadly consistent with a return towards pre-pandemic baselines in both countries, whereas the US living-donor series shows a more gradual convergence in this application. Within the explored model class and validation protocol, auxiliary covariates representing COVID burden and mortality add limited incremental predictive contribution beyond autoregressive and calendar components. Our analysis shows that donation time series represent an unconditional phenomenon, with auxiliary variables having a statistically negligible impact on donations, thus allowing a focus on more practical aspects related to ongoing challenges in the post-pandemic era, such as hospital overloads and changes in public perception.

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arXiv2025

A two-stage approach to heat-mortality risk assessment comparing multiple exposure-to-temperature models: the case study in Lazio, Italy

This study investigates how different spatiotemporal temperature models affect the estimation of heat-related mortality in Lazio, Italy (2008--2022). First, we compare three methods to reconstruct daily maximum temperature at the municipality level: 1. a Bayesian quantile regression model with spatial interpolation, 2. a Bayesian Gaussian regression model, 3. the gridded reanalysis data from ERA5-Land. Both Bayesian models are station-based and exhibit higher and more spatially variable temperatures compared to ERA5-Land. Then, using individual mortality data for cardiovascular and respiratory causes, we estimate temperature-mortality associations through Bayesian conditional Poisson models in a case-crossover design. Exposure is defined as the mean maximum temperature over the previous three days. Additional models include heatwave definitions combining different thresholds and durations. All models exhibit a marked increase in relative risk at high temperatures; however, the temperature of minimum risk varies significantly across methods. Stratified analyses reveal higher relative risk increases in females and the elderly (80+). Heatwave effects depend on the definitions used, but all methods capture an increased mortality risk associated with prolonged heat exposure. Results confirm the importance of temperature model choice in epidemiology and provide insights for early warning systems and climate-health adaptation strategies.

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arXiv2025

Integrating Deep Learning and Spatial Statistics in Marine Ecosystem Monitoring

In ecology, photogrammetry is a crucial method for efficiently collecting non-destructive samples of natural environments. When estimating the spatial distribution of animals, detecting objects in large-scale images becomes crucial. Object detection models enable large-scale analysis but introduce uncertainty because detection probability depends on various factors. To address detection bias, we model the distribution of a species of benthic animals (holothurians) in an area of the Italian Tyrrhenian coast near Giglio Island using a Thinned Log-Gaussian Cox Process (LGCP). We assume that a "true" intensity function accurately describes the distribution, while the observed process, resulting from independent thinning, is represented by a degraded intensity. The detection function controls the thinning mechanism, influenced by the object's location and other detection-related features. We use manual identification of holothurians as our benchmark. We compare automatic detection with this benchmark, an unthinned LGCP, and the thinned model to highlight the improvements gained from the proposed approach.Our method allows researchers to use photogrammetry, automatically identify objects of interest, and correct biases and approximations caused by the observation process.

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arXiv2025

Modelling benthic animals in space and time using Bayesian Point Process with cross validation: the case of Holoturians

Understanding the spatial distribution of Holothurians is an essential task for ecosystem monitoring and sustainable management, particularly in the Mediterranean habitats. However, species distribution modeling is often complicated by the presence-only nature of the data and heterogeneous sampling designs. This study develops a spatio-temporal framework based on Log-Gaussian Cox Processes to analyze Holothurians' positions collected across nine survey campaigns conducted from 2022 to 2024 near Giglio Island, Italy. The surveys combined high-resolution photogrammetry with diver-based visual censuses, leading to varying detection probabilities across habitats, especially within Posidonia oceanica meadows. We adopt a model with a shared spatial Gaussian process component to accommodate this complexity, accounting for habitat structure, environmental covariates, and temporal variability. Model estimation is performed using Integrated Nested Laplace Approximation. We evaluate the predictive performances of alternative model specifications through a novel k-fold cross-validation strategy for point processes, using the Continuous Ranked Probability Score. Our approach provides a flexible and computationally efficient framework for integrating heterogeneous presence-only data in marine ecology and comparing the predictive ability of alternative models.

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arXiv2024

Bayesian size-and-shape regression modelling

Building on Dryden et al. (2021), this note presents the Bayesian estimation of a regression model for size-and-shape response variables with Gaussian landmarks. Our proposal fits into the framework of Bayesian latent variable models and allows a highly flexible modelling framework.

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arXiv2023

Finite mixtures in capture-recapture surveys for modelling residency patterns in marine wildlife populations

In this work, the goal is to estimate the abundance of an animal population using data coming from capture-recapture surveys. We leverage the prior knowledge about the population's structure to specify a parsimonious finite mixture model tailored to its behavioral pattern. Inference is carried out under the Bayesian framework, where we discuss suitable priors' specification that could alleviate label-switching and non-identifiability issues affecting finite mixtures. We conduct simulation experiments to show the competitive advantage of our proposal over less specific alternatives. Finally, the proposed model is used to estimate the common bottlenose dolphins' population size at the Tiber River estuary (Mediterranean Sea), using data collected via photo-identification from 2018 to 2020. Results provide novel insights on the population's size and structure, and shed light on some of the ecological processes governing the population dynamics.

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arXiv2021

Spatial modelling of COVID-19 incident cases using Richards' curve: an application to the Italian regions

We introduce an extended generalised logistic growth model for discrete outcomes, in which a network structure can be specified to deal with spatial dependence and time dependence is dealt with using an Auto-Regressive approach. A major challenge concerns the specification of the network structure, crucial to consistently estimate the canonical parameters of the generalised logistic curve, e.g. peak time and height. Parameters are estimated under the Bayesian framework, using the {\texttt{ Stan}} probabilistic programming language. The proposed approach is motivated by the analysis of the first and second wave of COVID-19 in Italy, i.e. from February 2020 to July 2020 and from July 2020 to December 2020, respectively. We analyse data at the regional level and, interestingly enough, prove that substantial spatial and temporal dependence occurred in both waves, although strong restrictive measures were implemented during the first wave. Accurate predictions are obtained, improving those of the model where independence across regions is assumed.

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arXiv2021

Integration of presence-only data from several sources. A case study on dolphins' spatial distribution

Presence-only data are a typical occurrence in species distribution modeling. They include the presence locations and no information on the absence. Their modeling usually does not account for detection biases. In this work, we aim to merge three different sources of information to model the presence of marine mammals. The approach is fully general and it is applied to two species of dolphins in the Central Tyrrhenian Sea (Italy) as a case study. Data come from the Italian Environmental Protection Agency (ISPRA) and Sapienza University of Rome research campaigns, and from a careful selection of social media (SM) images and videos. We build a Log Gaussian Cox process where different detection functions describe each data source. For the SM data, we analyze several choices that allow accounting for detection biases. Our findings allow for a correct understanding of Stenella coeruleoalba and Tursiops truncatus distribution in the study area. The results prove that the proposed approach is broadly applicable, it can be widely used, and it is easily implemented in the R software using INLA and inlabru. We provide examples' code with simulated data in the supplementary materials.

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arXiv2020

Nowcasting COVID-19 incidence indicators during the Italian first outbreak

A novel parametric regression model is proposed to fit incidence data typically collected during epidemics. The proposal is motivated by real-time monitoring and short-term forecasting of the main epidemiological indicators within the first outbreak of COVID-19 in Italy. Accurate short-term predictions, including the potential effect of exogenous or external variables are provided; this ensures to accurately predict important characteristics of the epidemic (e.g., peak time and height), allowing for a better allocation of health resources over time. Parameters estimation is carried out in a maximum likelihood framework. All computational details required to reproduce the approach and replicate the results are provided.

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arXiv2020

Modeling "Equitable and Sustainable Well-being" (BES) using Bayesian Networks: A Case Study of the Italian regions

Measurement of well-being has been a highly debated topic since the end of the last century. While some specific aspects are still open issues, a multidimensional approach as well as the construction of shared and well-rooted systems of indicators are now accepted as the main route to measure this complex phenomenon. A meaningful effort, in this direction, is that of the Italian "Equitable and Sustainable Well-being" (BES) system of indicators, developed by the Italian National Institute of Statistics (ISTAT) and the National Council for Economics and Labour (CNEL). The BES framework comprises a number of atomic indicators measured yearly at the regional level and reflecting the different domains of well-being (e.g. Health, Education, Work \& Life Balance, Environment,...). In this work we aim at dealing with the multidimensionality of the BES system of indicators and try to answer three main research questions: I) What is the structure of the relationships among the BES atomic indicators; II) What is the structure of the relationships among the BES domains; III) To what extent the structure of the relationships reflects the current BES theoretical framework. We address these questions by implementing Bayesian Networks (BNs), a widely accepted class of multivariate statistical models, particularly suitable for handling reasoning with uncertainty. Implementation of a BN results in a set of nodes and a set of conditional independence statements that provide an effective tool to explore associations in a system of variables. In this work, we also suggest two strategies for encoding prior knowledge in the BN estimating algorithm so that the BES theoretical framework can be represented into the network.

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arXiv2020

An ensemble approach to short-term forecast of COVID-19 intensive care occupancy in Italian Regions

The availability of intensive care beds during the Covid-19 epidemic is crucial to guarantee the best possible treatment to severely affected patients. In this work we show a simple strategy for short-term prediction of Covid-19 ICU beds, that has proved very effective during the Italian outbreak in February to May 2020. Our approach is based on an optimal ensemble of two simple methods: a generalized linear mixed regression model which pools information over different areas, and an area-specific non-stationary integer autoregressive methodology. Optimal weights are estimated using a leave-last-out rationale. The approach has been set up and validated during the epidemic in Italy. A report of its performance for predicting ICU occupancy at Regional level is included.

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arXiv2020

CircSpaceTime: an R package for spatial and spatio-temporal modeling of Circular data

CircSpaceTime is the only R package currently available that implements Bayesian models for spatial and spatio-temporal interpolation of circular data. Such data are often found in applications where, among the many, wind directions, animal movement directions, and wave directions are involved. To analyze such data we need models for observations at locations s and times t, as the so-called geostatistical models, providing structured dependence assumed to decay in distance and time. The approach we take begins with Gaussian processes defined for linear variables over space and time. Then, we use either wrapping or projection to obtain processes for circular data. The models are cast as hierarchical, with fitting and inference within a Bayesian framework. Altogether, this package implements work developed by a series of papers; the most relevant being Jona Lasinio, Gelfand, and Jona Lasinio (2012); Wang and Gelfand (2014); Mastrantonio, Jona Lasinio, and Gelfand (2016). All procedures are written using Rcpp. Estimates are obtained by MCMC allowing parallelized multiple chains run. The implementation of the proposed models is considerably improved on the simple routines adopted in the research papers. As original running examples, for the spatial and spatio-temporal settings, we use wind directions datasets over central Italy.

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arXiv2017

A Hierarchical Multivariate Spatio-Temporal Model for Large Clustered Climate data with Annual Cycles

We present a multivariate hierarchical space-time model to describe the joint series of monthly extreme temperatures and amounts of rainfall. Data are available for 360 monitoring stations over 60 years, with missing data affecting almost all series. Model components account for spatio-temporal dependence with annual cycles, dependence on covariates and between responses. The very large amount of data is tackled modeling the spatio-temporal dependence by the nearest neighbor Gaussian process. Response multivariate dependencies are described using the linear model of coregionalization, while annual cycles are assessed by a circular representation of time. The proposed approach allows imputation of missing values and easy interpolation of climate surfaces at the national level. The motivation behind is the characterization of the so called ecoregions over the Italian territory. Ecoregions delineate broad and discrete ecologically homogeneous areas of similar potential as regards the climate, physiography, hydrography, vegetation and wildlife, and provide a geographic framework for interpreting ecological processes, disturbance regimes, vegetation patterns and dynamics. To now, the two main Italian macro-ecoregions are hierarchically arranged into 35 zones. The current climatic characterization of Italian ecoregions is based on data and bioclimatic indices for the period 1955-1985 and requires an appropriate update.

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arXiv2017

Bayesian Measurement Error Correction in Structured Additive Distributional Regression with an Application to the Analysis of Sensor Data on Soil-Plant Variability

The flexibility of the Bayesian approach to account for covariates with measurement error is combined with semiparametric regression models for a class of continuous, discrete and mixed univariate response distributions with potentially all parameters depending on a structured additive predictor. Markov chain Monte Carlo enables a modular and numerically efficient implementation of Bayesian measurement error correction based on the imputation of unobserved error-free covariate values. We allow for very general measurement errors, including correlated replicates with heterogeneous variances. The proposal is first assessed by a simulation trial, then it is applied to the assessment of a soil-plant relationship crucial for implementing efficient agricultural management practices. Observations on multi-depth soil information forage ground-cover for a seven hectares Alfalfa stand in South Italy were obtained using sensors with very refined spatial resolution. Estimating a functional relation between ground-cover and soil with these data involves addressing issues linked to the spatial and temporal misalignment and the large data size. We propose a preliminary spatial interpolation on a lattice covering the field and subsequent analysis by a structured additive distributional regression model accounting for measurement error in the soil covariate. Results are interpreted and commented in connection to possible Alfalfa management strategies.

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arXiv2017

Assessing the role of the spatial scale in the analysis of lagoon biodiversity. A case-study on the macrobenthic fauna of the Po River Delta

The analysis of benthic assemblages is a valuable tool to describe the ecological status of transitional water ecosystems, but species are extremely sensitive and respond to both microhabitat and seasonal differences. The identification of changes in the composition of the macrobenthic community in specific microhabitats can then be used as an "early warning" for environmental changes which may affect the economic and ecological importance of lagoons, through their provision of Ecosystem Services. From a conservational point of view, the appropriate definition of the spatial aggregation level of microhabitats or local communities is of crucial importance. The main objective of this work is to assess the role of the spatial scale in the analysis of lagoon biodiversity. First, we analyze the variation in the sample coverage for alternative aggregations of the monitoring stations in three lagoons of the Po River Delta. Then, we analyze the variation of a class of entropy indices by mixed effects models, properly accounting for the fixed effects of biotic and abiotic factors and random effects ruled by nested sources of variability corresponding to alternative definitions of local communities. Finally, we address biodiversity partitioning by a generalized diversity measure, namely the Tsallis entropy, and for alternative definitions of the local communities. The main results obtained by the proposed statistical protocol are presented, discussed and framed in the ecological context.

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arXiv2017

The wrapped skew Gaussian process for analyzing spatio-temporal data

We consider modeling of angular or directional data viewed as a linear variable wrapped onto a unit circle. In particular, we focus on the spatio-temporal context, motivated by a collection of wave directions obtained as computer model output developed dynamically over a collection of spatial locations. We propose a novel wrapped skew Gaussian process which enriches the class of wrapped Gaussian process. The wrapped skew Gaussian process enables more flexible marginal distributions than the symmetric ones arising under the wrapped Gaussian process and it allows straightforward interpretation of parameters. We clarify that replication through time enables criticism of the wrapped process in favor of the wrapped skew process. We formulate a hierarchical model incorporating this process and show how to introduce appropriate latent variables in order to enable efficient fitting to dynamic spatial directional data. We also show how to implement kriging and forecasting under this model. We provide a simulation example as a proof of concept as well as a real data example. Both examples reveal consequential improvement in predictive performance for the wrapped skew Gaussian specification compared with the earlier wrapped Gaussian version.

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arXiv2017

Spatio-temporal circular models with non-separable covariance structure

Circular data arise in many areas of application. Recently, there has been interest in looking at circular data collected separately over time and over space. Here, we extend some of this work to the spatio-temporal setting, introducing space-time dependence. We accommodate covariates, implement full kriging and forecasting, and also allow for a nugget which can be time dependent. We work within a Bayesian framework, introducing suitable latent variables to facilitate Markov chain Monte Carlo (MCMC) model fitting. The Bayesian framework enables us to implement full inference, obtaining predictive distributions for kriging and forecasting. We offer comparison between the less flexible but more interpretable wrapped Gaussian process and the more flexible but less interpretable projected Gaussian process. We do this illustratively using both simulated data and data from computer model output for wave directions in the Adriatic Sea off the coast of Italy.

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