Quantifying the Trendiness of Trends.

News media often report that the trend of some public health outcome has changed. These statements are frequently based on longitudinal data, and the change in trend is typically found to have occurred at the most recent data collection time point-if no change had occurred the story is less likely to be reported. Such claims may potentially influence public health decisions on a national level. We propose two measures for quantifying the trendiness of trends. Assuming that reality evolves in continuous time, we define what constitutes a trend and a change in trend, and introduce a probabilistic Trend Direction Index. This index has the interpretation of the probability that a latent characteristic has changed monotonicity at any given time conditional on observed data. We also define an index of Expected Trend Instability quantifying the expected number of changes in trend on an interval. Using a latent Gaussian process model, we show how the Trend Direction Index and the Expected Trend Instability can be estimated in a Bayesian framework, and use the methods to analyse the proportion of smokers in Denmark during the last 20 years and the development of new COVID-19 cases in Italy from 24 February onwards.

Robust optimal estimation of location from discretely sampled functional data

Estimating location is a central problem in functional data analysis, yet most current estimation procedures either unrealistically assume completely observed trajectories or lack robustness with respect to the many kinds of anomalies one can encounter in the functional setting. To remedy these deficiencies we introduce the first class of optimal robust location estimators based on discretely sampled functional data. The proposed method is based on M‐type smoothing spline estimation with repeated measurements and is suitable for both commonly and independently observed trajectories that are subject to measurement error. We show that under suitable assumptions the proposed family of estimators is minimax rate optimal both for commonly and independently observed trajectories and we illustrate its highly competitive performance and practical usefulness in a Monte‐Carlo study and a real‐data example involving recent Covid‐19 data. [ FROM AUTHOR] Copyright of Scandinavian Journal of Statistics is the property of Wiley-Blackwell and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full . (Copyright applies to all s.)

Characteristics of Urban Traffic Control Measures in China in the Background of COVID-19

The rapid global spread of the coronavirus disease 2019 (COVID-19) is now a reality. China has taken urban traffic control measures to prevent and control the epidemic, but this has prevented the flow of people between cities. This study investigates the mechanism of the impact of urban traffic control measures on the intercity population flow in China using the one-way causal measurement method. The results show that the impact of urban traffic control measures on the intercity flow of the population changes with time. Based on this, this study makes scientific suggestions for the government on how to reasonably undertake traffic control measures. [ FROM AUTHOR] Copyright of Journal of Advanced Computational Intelligence & Intelligent Informatics is the property of Fuji Technology Press Ltd. and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full . (Copyright applies to all s.)

COVID-19 effects on the Canadian term structure of interest rates

In Canada, COVID-19 pandemic triggered exceptional monetary policy interventions by the central bank, which in March 2020 made multiple unscheduled cuts to its target rate. In this paper we assess the extent to which Bank of Canada interventions affected the determinants of the yield curve. In particular, we apply Functional Principal Component Analysis to the term structure of interest rates. We find that, during the pandemic, the long-run dependence of level and slope components of the yield curve is unchanged with respect to previous months, although the shape of the mean yield curve completely changed after target rate cuts. Bank of Canada was effective in lowering the whole yield curve and correcting the inverted hump of previous months, but it was not able to reduce the exposure to already existing long-run risks.

An Adaptive-to-Model Test for Parametric Functional Single-Index Model

Model checking methods based on non-parametric estimation are widely used because of their tractable limiting null distributions and being sensitive to high-frequency oscillation alternative models. However, this kind of test suffers from the curse of dimensionality, resulting in slow convergence, especially for functional data with infinite dimensional features. In this paper, we propose an adaptive-to-model test for a parametric functional single-index model by using the orthogonality of residual and its conditional expectation. The test achieves model adaptation by sufficient dimension reduction which utilizes functional sliced inverse regression. This test procedure can be easily extended to other non-parametric test methods. Under certain conditions, we prove the asymptotic properties of the test statistic under the null hypothesis, fixed alternative hypothesis and local alternative hypothesis. Simulations show that our test has better performance than the method that does not use functional sufficient dimension reduction. An analysis of COVID-19 data verifies our conclusion.

The effect of vaccine on COVID-19 spread by function-on-scalar regression model: a case study of Africa.

Aim: This paper aimed to study the effect of the vaccine on the reproduction rate of coronavirus in Africa from January 2021 to November 2021. Subject and methods: Functional data analysis (FDA), a relatively new area in statistics, can describe, analyze, and predict data collected over time, space, or other continuum measures in many countries every day and is increasingly common across scientific domains. For our data, the first step of functional data is smoothing. We used the B-spline method to smooth our data. Then, we apply the function-on-scalar and Bayes function-on-scalar models to fit our data. Results: Our results indicate a statistically significant relationship between the vaccine and the rate of virus reproduction and spread. When the vaccination rate falls, the reproduction rate also decreases. Furthermore, we found that the effect of latitude and the region on the reproduction rate depends on the region. We discovered that in Middle Africa, from the beginning of the year until the end of the summer, the impact is negative, implying that the virus spread due to a decrease in the vaccination rates. Conclusion: The study found that vaccination rates significantly impact the virus's reproduction rate.

A Dynamic Interaction Semiparametric Function-on-Scalar Model

Motivated by recent work studying massive functional data, such as the COVID-19 data, we propose a new dynamic interaction semiparametric function-on-scalar (DISeF) model. The proposed model is useful to explore the dynamic interaction among a set of covariates and their effects on the functional response. The proposed model includes many important models investigated recently as special cases. By tensor product B-spline approximating the unknown bivariate coefficient functions, a three-step efficient estimation procedure is developed to iteratively estimate bivariate varying-coefficient functions, the vector of index parameters, and the covariance functions of random effects. We also establish the asymptotic properties of the estimators including the convergence rate and their asymptotic distributions. In addition, we develop a test statistic to check whether the dynamic interaction varies with time/spatial locations, and we prove the asymptotic normality of the test statistic. The finite sample performance of our proposed method and of the test statistic are investigated with several simulation studies. Our proposed DISeF model is also used to analyze the COVID-19 data and the ADNI data. In both applications, hypothesis testing shows that the bivariate varying-coefficient functions significantly vary with the index and the time/spatial locations. For instance, we find that the interaction effect of the population aging and the socio-economic covariates, such as the number of hospital beds, physicians, nurses per 1000 people and GDP per capita, on the COVID-19 mortality rate varies in different periods of the COVID-19 pandemic. The healthcare infrastructure index related to the COVID-19 mortality rate is also obtained for 141 countries estimated based on the proposed DISeF model.

Probabilistic K-means with Local Alignment for Clustering and Motif Discovery in Functional Data

We develop a new method to locally cluster curves and discover functional motifs, that is, typical shapes that may recur several times along and across the curves capturing important local characteristics. In order to identify these shared curve portions, our method leverages ideas from functional data analysis (joint clustering and alignment of curves), bioinformatics (local alignment through the extension of high similarity seeds) and fuzzy clustering (curves belonging to more than one cluster, if they contain more than one typical shape). It can employ various dissimilarity measures and incorporate derivatives in the discovery process, thus exploiting complex facets of shapes. We demonstrate the performance of our method with an extensive simulation study, and show how it generalizes other clustering methods for functional data. Finally, we provide real data applications to Italian Covid-19 death curves and Omics data related to mutagenesis. Supplementary materials for this article are available online. © 2023 American Statistical Association, Institute of Mathematical Statistics, and Interface Foundation of North America.

Functional, Multivariate Functional and Spatial PCA: Application to Covid-19 Data in the African Continent

Covid-19 pandemic has negatively impacted many areas, including the economy and health care facilities, and has left more than 5 million deaths worldwide. In this paper, we use functional data analysis methods to describe evolution of the number of cases and the number of deaths of Covid-19 in Africa. We perform functional principal component analysis, Multivariate functional component analysis and spatial component analysis to characterize better the phenomena and spatial data to determine the impact of a region's neighborhood on number of cases. The obtained results allow us to have a better knowledge of the evolution of the pandemic in African continent. © 2023, The Author(s), under exclusive license to Springer Nature Switzerland AG.

Asynchronous Changepoint Estimation for Spatially Correlated Functional Time Series.

We propose a new solution under the Bayesian framework to simultaneously estimate mean-based asynchronous changepoints in spatially correlated functional time series. Unlike previous methods that assume a shared changepoint at all spatial locations or ignore spatial correlation, our method treats changepoints as a spatial process. This allows our model to respect spatial heterogeneity and exploit spatial correlations to improve estimation. Our method is derived from the ubiquitous cumulative sum (CUSUM) statistic that dominates changepoint detection in functional time series. However, instead of directly searching for the maximum of the CUSUM-based processes, we build spatially correlated two-piece linear models with appropriate variance structure to locate all changepoints at once. The proposed linear model approach increases the robustness of our method to variability in the CUSUM process, which, combined with our spatial correlation model, improves changepoint estimation near the edges. We demonstrate through extensive simulation studies that our method outperforms existing functional changepoint estimators in terms of both estimation accuracy and uncertainty quantification, under either weak or strong spatial correlation, and weak or strong change signals. Finally, we demonstrate our method using a temperature data set and a coronavirus disease 2019 (COVID-19) study. Supplementary materials accompanying this paper appear online. Supplementary materials for this article are available at 10.1007/s13253-022-00519-w.

The lock-down effects of COVID-19 on the air pollution indices in Iran and its neighbors.

Introduction: The COVID-19 restrictions have a lot of various peripheral negative and positive effects, like economic shocks and decreasing air pollution, respectively. Many studies showed NO2 reduction in most parts of the world. Methods: Iran and its land and maritime neighbors have about 7.4% of the world population and 6.3% and 5.8% of World COVID-19 cases and deaths, respectively. The air pollution indices of them such as CH4 (Methane), CO_1 (CO), H2O (Water), HCHO (Tropospheric Atmospheric Formaldehyde), NO2 (Nitrogen oxides), O3 (ozone), SO2 (Sulfur Dioxide), UVAI_AAI [UV Aerosol Index (UVAI)/Absorbing Aerosol Index (AAI)] are studied from the First quarter of 2019 to the fourth quarter of 2021 with Copernicus Sentinel 5 Precursor (S5P) satellite data set from Google Earth Engine. The outliers are detected based on the depth functions. We use a two-sample t test, Wilcoxon test, and interval-wise testing for functional data to control the familywise error rate. Result: The adjusted p value comparison between Q2 of 2019 and Q2 of 2020 in NO2 for almost all countries is statistically significant except Iraq, UAE, Bahrain, Qatar, and Kuwait. But, the CO and HCHO are not statistically significant in any country. Although CH4, O3, and UVAI_AAI are statistically significant for some countries. In the Q2 comparison for NO2 between 2020 and 2021, only Iran, Armenia, Turkey, UAE, and Saudi Arabia are statistically significant. However, Ch4 is statistically significant for all countries except Azerbaijan. Conclusions: The comparison with and without adjusted p values declares the decreases in some air pollution in these countries. Supplementary Information: The online version contains supplementary material available at 10.1007/s40808-022-01528-x.

Assessment of Excess Mortality in Italy in 2020-2021 as a Function of Selected Macro-Factors.

BACKGROUND: Excess mortality (EM) can reliably capture the impact of a pandemic, this study aims at assessing the numerous factors associated with EM during the COVID-19 pandemic in Italy. METHODS: Mortality records (ISTAT 2015-2021) aggregated in the 610 Italian Labour Market Areas (LMAs) were used to obtain the EM P-scores to associate EM with socioeconomic variables. A two-step analysis was implemented: (1) Functional representation of EM and clustering. (2) Distinct functional regression by cluster. RESULTS: The LMAs are divided into four clusters: 1 low EM; 2 moderate EM; 3 high EM; and 4 high EM-first wave. Low-Income showed a negative association with EM clusters 1 and 4. Population density and percentage of over 70 did not seem to affect EM significantly. Bed availability positively associates with EM during the first wave. The employment rate positively associates with EM during the first two waves, becoming negatively associated when the vaccination campaign began. CONCLUSIONS: The clustering shows diverse behaviours by geography and time, the impact of socioeconomic characteristics, and local governments and health services' responses. The LMAs allow to draw a clear picture of local characteristics associated with the spread of the virus. The employment rate trend confirmed that essential workers were at risk, especially during the first wave.

BAYESIAN CLUSTERING OF SPATIAL FUNCTIONAL DATA WITH APPLICATION TO A HUMAN MOBILITY STUDY DURING COVID-19

The coronavirus (COVID-19) global pandemic has made a significant impact on people's social activities. Cell phone mobility data provide unique and rich information on studying this impact. The motivating dataset of this study is the daily leaving-home index data at Harris County in Texas provided by SafeGraph. To study changes in daily leaving-home index and how they relate to public policy and sociodemographic variables, we propose a new Bayesian wavelet model for modeling and clustering spatial functional data, where domain partitioning is achieved by operating on the spanning trees. The resulting clusters can have arbitrary shapes and are spatially contiguous in the input domain. An efficient tailored reversible jump Markov chain Monte Carlo algorithm is proposed to implement the model. The method is applied to the spatial functional data of the daily percentages of people who left home. We focus on the time period covering both lockdown and phased reopening in Texas during the COVID-19 pandemic and study the changing behaviors of those functional curves. By linking the clustering results with the sociodemographic information, we identify several covariates of census blocks that have a noticeable impact on the clustering patterns of people's mobility behaviors. © Institute of Mathematical Statistics, 2023.

Bayesian adaptive selection of basis functions for functional data representation

Considering the context of functional data analysis, we developed and applied a new Bayesian approach via the Gibbs sampler to select basis functions for a finite representation of functional data. The proposed methodology uses Bernoulli latent variables to assign zero to some of the basis function coefficients with a positive probability. This procedure allows for an adaptive basis selection since it can determine the number of bases and which ones should be selected to represent functional data. Moreover, the proposed procedure measures the uncertainty of the selection process and can be applied to multiple curves simultaneously. The methodology developed can deal with observed curves that may differ due to experimental error and random individual differences between subjects, which one can observe in a real dataset application involving daily numbers of COVID-19 cases in Brazil. Simulation studies show the main properties of the proposed method, such as its accuracy in estimating the coefficients and the strength of the procedure to find the true set of basis functions. Despite having been developed in the context of functional data analysis, we also compared the proposed model via simulation with the well-established LASSO and Bayesian LASSO, which are methods developed for non-functional data. © 2023 Informa UK Limited, trading as Taylor & Francis Group.

Modeling the evolution of deaths from infectious diseases with functional data models: The case of COVID-19 in Brazil.

In this paper, we apply statistical methods for functional data to explore the heterogeneity in the registered number of deaths of COVID-19, over time. The cumulative daily number of deaths in regions across Brazil is treated as continuous curves (functional data). The first stage of the analysis applies clustering methods for functional data to identify and describe potential heterogeneity in the curves and their functional derivatives. The estimated clusters are labeled with different "levels of alert" to identify cities in a possible critical situation. In the second stage of the analysis, we apply a functional quantile regression model for the death curves to explore the associations with functional rates of vaccination and stringency and also with several scalar geographical, socioeconomic and demographic covariates. The proposed model gave a better curve fit at different levels of the cumulative number of deaths when compared to a functional regression model based on ordinary least squares. Our results add to the understanding of the development of COVID-19 death counts.

Probabilistic K-means with local alignment for clustering and motif discovery in functional data

We develop a new method to locally cluster curves and discover functional motifs, i.e. typical shapes that may recur several times along and across the curves capturing important local characteristics. In order to identify these shared curve portions, our method leverages ideas from functional data analysis (joint clustering and alignment of curves), bioinformatics (local alignment through the extension of high similarity seeds) and fuzzy clustering (curves belonging to more than one cluster, if they contain more than one typical shape). It can employ various dissimilarity measures and incorporate derivatives in the discovery process, thus exploiting complex facets of shapes. We demonstrate the performance of our method with an extensive simulation study, and show how it generalizes other clustering methods for functional data. Finally, we provide real data applications to Italian Covid-19 death curves and Omics data related to mutagenesis. [ FROM AUTHOR]

Exploration of the impact of political ideology disparity on COVID-19 transmission in the United States.

BACKGROUND: Based on individual-level studies, previous literature suggested that conservatives and liberals in the United States had different perceptions and behaviors when facing the COVID-19 threat. From a state-level perspective, this study further explored the impact of personal political ideology disparity on COVID-19 transmission before and after the emergence of Omicron. METHODS: A new index was established, which depended on the daily cumulative number of confirmed cases in each state and the corresponding population size. Then, by using the 2020 United States presidential election results, the values of the built index were further divided into two groups concerning the political party affiliation of the winner in each state. In addition, each group was further separated into two parts, corresponding to the time before and after Omicron predominated. Three methods, i.e., functional principal component analysis, functional analysis of variance, and function-on-scalar linear regression, were implemented to statistically analyze and quantify the impact. RESULTS: Findings reveal that the disparity of personal political ideology has caused a significant discrepancy in the COVID-19 crisis in the United States. Specifically, the findings show that at the very early stage before the emergence of Omicron, Democratic-leaning states suffered from a much greater severity of the COVID-19 threat but, after July 2020, the severity of COVID-19 transmission in Republican-leaning states was much higher than that in Democratic-leaning states. Situations were reversed when the Omicron predominated. Most of the time, states with Democrat preferences were more vulnerable to the threat of COVID-19 than those with Republican preferences, even though the differences decreased over time. CONCLUSIONS: The individual-level disparity of political ideology has impacted the nationwide COVID-19 transmission and such findings are meaningful for the government and policymakers when taking action against the COVID-19 crisis in the United States.

Partially Linear Additive Functional Regression

We consider a novel partially linear additive functional regression model in which both a functional predictor and some scalar predictors appear. The functional part has a semiparametric continuously additive form, while the scalar predictors appear in the linear part. The functional part has the optimal convergence rate, and the asymptotic normality of the nonfunctional part is also shown. Simulations and an empirical analysis of a Covid-19 data set demonstrate the performance of the proposed estimator.

Revealing Public Opinion towards the COVID-19 Vaccine with Weibo Data in China: BertFDA-Based Model.

The COVID-19 pandemic has created unprecedented burdens on people's health and subjective well-being. While countries around the world have established models to track and predict the affective states of COVID-19, identifying the topics of public discussion and sentiment evolution of the vaccine, particularly the differences in topics of concern between vaccine-support and vaccine-hesitant groups, remains scarce. Using social media data from the two years following the outbreak of COVID-19 (23 January 2020 to 23 January 2022), coupled with state-of-the-art natural language processing (NLP) techniques, we developed a public opinion analysis framework (BertFDA). First, using dynamic topic clustering on Weibo through the latent Dirichlet allocation (LDA) model, a total of 118 topics were generated in 24 months using 2,211,806 microblog posts. Second, by building an improved Bert pre-training model for sentiment classification, we provide evidence that public negative sentiment continued to decline in the early stages of COVID-19 vaccination. Third, by modeling and analyzing the microblog posts from the vaccine-support group and the vaccine-hesitant group, we discover that the vaccine-support group was more concerned about vaccine effectiveness and the reporting of news, reflecting greater group cohesion, whereas the vaccine-hesitant group was particularly concerned about the spread of coronavirus variants and vaccine side effects. Finally, we deployed different machine learning models to predict public opinion. Moreover, functional data analysis (FDA) is developed to build the functional sentiment curve, which can effectively capture the dynamic changes with the explicit function. This study can aid governments in developing effective interventions and education campaigns to boost vaccination rates.

CellDrift: inferring perturbation responses in temporally sampled single-cell data.

Cells and tissues respond to perturbations in multiple ways that can be sensitively reflected in the alterations of gene expression. Current approaches to finding and quantifying the effects of perturbations on cell-level responses over time disregard the temporal consistency of identifiable gene programs. To leverage the occurrence of these patterns for perturbation analyses, we developed CellDrift (https://github.com/KANG-BIOINFO/CellDrift), a generalized linear model-based functional data analysis method that is capable of identifying covarying temporal patterns of various cell types in response to perturbations. As compared to several other approaches, CellDrift demonstrated superior performance in the identification of temporally varied perturbation patterns and the ability to impute missing time points. We applied CellDrift to multiple longitudinal datasets, including COVID-19 disease progression and gastrointestinal tract development, and demonstrated its ability to identify specific gene programs associated with sequential biological processes, trajectories and outcomes.