Quantifying the Impact of Climatic Factors on Dengue Incidence Using Generalized Linear Mixed Model with Spatio-Temporal Bayesian Poisson Random Effects Approach

2021 ◽  
pp. 328-340
Author(s):  
Nik Nur Fatin Fatihah Sapri ◽  
Wan Fairos Wan Yaacob ◽  
Bee Wah Yap
Keyword(s):  
Random Effects ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Climatic Factors ◽  
Generalized Linear Mixed Model ◽  
Spatio Temporal ◽  
The Impact

scholarly journals A Generalized Linear Mixed Model Approach to Assess Emerald Ash Borer Diffusion

2020 ◽  
Vol 9 (7) ◽  
pp. 414
Author(s):  
Yuan Zhong ◽  
Baoxin Hu ◽  
G. Brent Hall ◽  
Farah Hoque ◽  
Wei Xu ◽  
...  
Keyword(s):  
Random Effects ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Climatic Factors ◽  
Anthropogenic Activities ◽  
Emerald Ash Borer ◽  
Predictive Performance ◽  
Generalized Linear Mixed Model ◽  
Agrilus Planipennis ◽  
Mixed Model Approach

The Asian Emerald Ash Borer beetle (EAB, Agrilus planipennis Fairmaire) can cause damage to all species of Ash trees (Fraxinus), and rampant, unchecked infestations of this insect can cause significant damage to forests. It is thus critical to assess and model the spread of the EAB in a manner that allows authorities to anticipate likely areas of future tree infestation. In this study, a generalized linear mixed model (GLMM), combining the features of the commonly used generalized linear model (GLM) and a random effects model, was developed to predict future EAB spread patterns in Southern Ontario, Canada. The GLMM was designed to deal with autocorrelation in the data. Two random effects were established based on the geographic information provided with the EAB data, and a method based on statistical inference was proposed to identify the most significant factors associated with the distribution of the EAB. The results of the model showed that 95% of the testing data were correctly classified. The predictive performance of the GLMM was substantially enhanced in comparison with that obtained by the GLM. The influence of climatic factors, such as wind speed and anthropogenic activities, had the most significant influence on the spread of the EAB.

scholarly journals Bayesian spatial and spatio-temporal approaches to modelling dengue fever: a systematic review

2018 ◽  
Vol 147 ◽  
Author(s):  
A. Aswi ◽  
S. M. Cramb ◽  
P. Moraga ◽  
K. Mengersen
Keyword(s):  
Dengue Fever ◽  
Random Effects ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Assessment Tool ◽  
Temporal Dynamics ◽  
Random Effect ◽  
Temperature And Precipitation ◽  
Generalised Linear Mixed Model ◽  
Spatio Temporal

AbstractDengue fever (DF) is one of the world's most disabling mosquito-borne diseases, with a variety of approaches available to model its spatial and temporal dynamics. This paper aims to identify and compare the different spatial and spatio-temporal Bayesian modelling methods that have been applied to DF and examine influential covariates that have been reportedly associated with the risk of DF. A systematic search was performed in December 2017, using Web of Science, Scopus, ScienceDirect, PubMed, ProQuest and Medline (via Ebscohost) electronic databases. The search was restricted to refereed journal articles published in English from January 2000 to November 2017. Thirty-one articles met the inclusion criteria. Using a modified quality assessment tool, the median quality score across studies was 14/16. The most popular Bayesian statistical approach to dengue modelling was a generalised linear mixed model with spatial random effects described by a conditional autoregressive prior. A limited number of studies included spatio-temporal random effects. Temperature and precipitation were shown to often influence the risk of dengue. Developing spatio-temporal random-effect models, considering other priors, using a dataset that covers an extended time period, and investigating other covariates would help to better understand and control DF transmission.

Analysis of aggregation, a worked example: numbers of ticks on red grouse chicks

Parasitology ◽  
2001 ◽  
Vol 122 (5) ◽  
pp. 563-569 ◽  
Author(s):  
D. A. ELSTON ◽  
R. MOSS ◽  
T. BOULINIER ◽  
C. ARROWSMITH ◽  
X. LAMBIN
Keyword(s):  
Random Effects ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Negative Binomial ◽  
Generalized Linear Mixed Model ◽  
Red Grouse ◽  
Worked Example ◽  
Fixed And Random Effects ◽  
Individual Effects ◽  
Lagopus Lagopus Scoticus

The statistical aggregation of parasites among hosts is often described empirically by the negative binomial (Poisson-gamma) distribution. Alternatively, the Poisson-lognormal model can be used. This has the advantage that it can be fitted as a generalized linear mixed model, thereby quantifying the sources of aggregation in terms of both fixed and random effects. We give a worked example, assigning aggregation in the distribution of sheep ticksIxodes ricinuson red grouseLagopus lagopus scoticuschicks to temporal (year), spatial (altitude and location), brood and individual effects. Apparent aggregation among random individuals in random broods fell 8-fold when spatial and temporal effects had been accounted for.

scholarly journals A generalized linear mixed model for understanding determinant factors of student's interest in pursuing bachelor's degree at Universitas Syiah Kuala

2021 ◽  
Vol 21 (2) ◽  
pp. 72-80
Author(s):  
ASEP RUSYANA ◽  
KHAIRIL ANWAR NOTODIPUTRO ◽  
BAGUS SARTONO
Keyword(s):  
High Schools ◽  
Normal Distribution ◽  
Random Effects ◽  
Fixed Effects ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Generalized Linear Mixed Model ◽  
Likelihood Method ◽  
Response Variable ◽  
Banda Aceh

Generalized Linear Mixed Model (GLMM) is a framework that has a response variable, fixed effects, and random effects. The response variable comes from an exponential family, whereas random effects have a normal distribution. Estimating parameters can be calculated using the maximum likelihood method using the Laplace approach or the Gauss-Hermite Quadrature (GHQ) approach. The purpose of this study was to identify factors that trigger student's interest to continue studying at Universitas Syiah Kuala (USK) using both techniques.  The GLMM is suitable for the data because the variable response has a Bernoulli distribution, and the random effects are assumed to be having a normal distribution. Also, the model helps identify the relationship between the dependent variable and the predictors. This study utilizes data from six high schools in Banda Aceh city drawn using a two-stage sampling technique. Stage 1, we randomly chose six out of sixteen public senior high schools in Banda Aceh. Stage 2, we selected students from each school from four different major classes. The GLMM model includes one binary response variable, five numerical fixed-effects, and two random effects. The response variable is the interest of high school students to continue study at USK (yes or no). The five fixed effects in the model including scores of collaboration (C), Action (A), Emotion (E), Purposes (P), and Hope (H).  Finally, the random effects are schools (S) and majors (M). In this study, both Laplace and GHQ techniques produce identical results. The predictors that can explain student interest are A, E, and H. These predictors have a positive effect. The random effects of schools and majors are not significantly different from zero. The model with three significant predictors is better than the complete predictor model.

scholarly journals 19 Safety in numbers: Social isolation increases behavioral responses of cattle during startle tests

2019 ◽  
Vol 97 (Supplement_1) ◽  
pp. 18-18
Author(s):  
Amanda Mathias ◽  
Courtney L Daigle
Keyword(s):  
Social Isolation ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Behavioral Responses ◽  
Random Order ◽  
Generalized Linear Mixed Model ◽  
Fear Response ◽  
Video Recordings ◽  
Safety In Numbers ◽  
The Impact

Abstract Social isolation confounds cattle fear tests. Fear tests often require individuals to be isolated from the herd, possibly eliciting other emotions (i.e. panic and grief) outside of fear. To test this, steer (n = 32) behavior during an individual startle test (IST) and a group startle test (GST) were video recorded. During IST, one steer was placed in a solid sided pen and, after 60 seconds, two umbrellas opened simultaneously. Behavior was video recorded for an additional four minutes. For GST, the same procedures were followed, except 4 familiar steers were in the pen simultaneously. Within each test, steers were evaluated in a random order. IST retesting (IST_2) occurred five weeks after the first IST (IST_1). The GST took place one week after IST_2 testing completed. Video recordings of IST_1, IST_2, and GST were decoded for frequency and duration of behavior (steps, standing bouts, time spent standing, eliminations). Relationships among behavior, test, and minute of test were analyzed using Generalized Linear Mixed Model (PROC MIXED). Minute and test affected number of steps (P < 0.0001) and time spent standing (P < 0.0001). During GST, steers performed fewer steps than in the IST_1 (P < 0.0001) and IST_2 (P = 0.0003). There were no differences in step count between IST_1 and IST_2. Steers spent more time standing during GST than IST_1 (P < 0.0001) and IST_2 (P = 0.004). No differences in time-spent standing were seen between IST_1 and IST_2. Number of standing bouts were impacted by test (P = 0.0008). Steers stood more during GST than in IST_1 (P = 0.0007) and IST_2 (PP = 0.03) with no differences observed between IST_1 and IST_2. The IST is repeatable, yet the strength of the behavioral response is reduced during GST. This is the first quantifiable representation of the impact of social isolation on the fear response in beef cattle.

scholarly journals Privacy-preserving construction of generalized linear mixed model for biomedical computation

2020 ◽  
Vol 36 (Supplement_1) ◽  
pp. i128-i135
Author(s):  
Rui Zhu ◽  
Chao Jiang ◽  
Xiaofeng Wang ◽  
Shuang Wang ◽  
Hao Zheng ◽  
...  
Keyword(s):  
Em Algorithm ◽  
Random Effects ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Generalized Linear Mixed Model ◽  
Privacy Preserving ◽  
Supplementary Information ◽  
Genome Wide Association Studies ◽  
Linear Predictor ◽  
Biomedical Computation

Abstract Motivation The generalized linear mixed model (GLMM) is an extension of the generalized linear model (GLM) in which the linear predictor takes random effects into account. Given its power of precisely modeling the mixed effects from multiple sources of random variations, the method has been widely used in biomedical computation, for instance in the genome-wide association studies (GWASs) that aim to detect genetic variance significantly associated with phenotypes such as human diseases. Collaborative GWAS on large cohorts of patients across multiple institutions is often impeded by the privacy concerns of sharing personal genomic and other health data. To address such concerns, we present in this paper a privacy-preserving Expectation–Maximization (EM) algorithm to build GLMM collaboratively when input data are distributed to multiple participating parties and cannot be transferred to a central server. We assume that the data are horizontally partitioned among participating parties: i.e. each party holds a subset of records (including observational values of fixed effect variables and their corresponding outcome), and for all records, the outcome is regulated by the same set of known fixed effects and random effects. Results Our collaborative EM algorithm is mathematically equivalent to the original EM algorithm commonly used in GLMM construction. The algorithm also runs efficiently when tested on simulated and real human genomic data, and thus can be practically used for privacy-preserving GLMM construction. We implemented the algorithm for collaborative GLMM (cGLMM) construction in R. The data communication was implemented using the rsocket package. Availability and implementation The software is released in open source at https://github.com/huthvincent/cGLMM. Supplementary information Supplementary data are available at Bioinformatics online.

scholarly journals 115 Safety in numbers: Social isolation increases behavioral responses of cattle during startle tests

2019 ◽  
Vol 97 (Supplement_1) ◽  
pp. 51-51
Author(s):  
Amanda Mathias ◽  
Courtney L Daigle
Keyword(s):  
Social Isolation ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Behavioral Responses ◽  
Random Order ◽  
Generalized Linear Mixed Model ◽  
Fear Response ◽  
Video Recordings ◽  
Safety In Numbers ◽  
The Impact

Abstract Social isolation confounds cattle fear tests. Fear tests often require individuals to be isolated from the herd, possibly eliciting other emotions (i.e. panic and grief) outside of fear. To test this, steer (n = 32) behavior during an individual startle test (IST) and a group startle test (GST) were video recorded. During IST, one steer was placed in a solid sided pen and, after 60 seconds, two umbrellas opened simultaneously. Behavior was video recorded for an additional four minutes. For GST, the same procedures were followed, except 4 familiar steers were in the pen simultaneously. Within each test, steers were evaluated in a random order. IST retesting (IST_2) occurred five weeks after the first IST (IST_1). The GST took place one week after IST_2 testing completed. Video recordings of IST_1, IST_2, and GST were decoded for frequency and duration of behavior (steps, standing bouts, time spent standing, eliminations). Relationships among behavior, test, and minute of test were analyzed using Generalized Linear Mixed Model (PROC MIXED). Minute and test affected number of steps (P < 0.0001) and time spent standing (P < 0.0001). During GST, steers performed fewer steps than in the IST_1 (P < 0.0001) and IST_2 (P = 0.0003). There were no differences in step count between IST_1 and IST_2. Steers spent more time standing during GST than IST_1 (P < 0.0001) and IST_2 (P = 0.004). No differences in time-spent standing were seen between IST_1 and IST_2. Number of standing bouts were impacted by test (P = 0.0008). Steers stood more during GST than in IST_1 (P = 0.0007) and IST_2 (PP = 0.03) with no differences observed between IST_1 and IST_2. The IST is repeatable, yet the strength of the behavioral response is reduced during GST. This is the first quantifiable representation of the impact of social isolation on the fear response in beef cattle.

Multiple Group Comparisons of the Fixed and Random Effects From the Generalized Linear Mixed Model

2021 ◽  
pp. 004912412098618
Author(s):  
Daniel Kasper ◽  
Katrin Schulz-Heidorf ◽  
Knut Schwippert
Keyword(s):  
Random Effects ◽  
Fixed Effects ◽  
Mixed Model ◽  
Linear Mixed Model ◽  
Asymptotic Properties ◽  
Generalized Linear Mixed Model ◽  
Test Statistic ◽  
Multiple Group ◽  
Fixed And Random Effects ◽  
Group Comparisons

In this article, we extend Liao’s test for across-group comparisons of the fixed effects from the generalized linear model to the fixed and random effects of the generalized linear mixed model (GLMM). Using as our basis the Wald statistic, we developed an asymptotic test statistic for across-group comparisons of these effects. The test can be applied when the fixed and random effects are multivariate normally distributed, and it works well for any link function and conditional distribution of the dependent variable of the GLMM. We also derived the asymptotic properties of this test, and because power information does not exist for either our new test statistic or Liao’s test, we implemented a power study to demonstrate the superiority of these tests over the alternatively proposed F test. Using an example, we show the application of the test and then discuss its possible restrictions with respect to the distribution of the random effects.

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