Journal of Data Science

The use of visuals is a key component in scientific communication. Decisions about the design of a data visualization should be informed by what design elements best support the audience’s ability to perceive and understand the components of the data visualization. We build on the foundations of Cleveland and McGill’s work in graphical perception, employing a large, nationally-representative, probability-based panel of survey respondents to test perception in stacked bar charts. Our findings provide actionable guidance for data visualization practitioners to employ in their work.

Social determinants of health (SDOH) are the conditions in which people are born, grow, work, and live. Although evidence suggests that SDOH influence a range of health outcomes, health systems lack the infrastructure to access and act upon this information. The purpose of this manuscript is to explain the methodology that a health system used to: 1) identify and integrate publicly available SDOH data into the health systems’ Data Warehouse, 2) integrate a HIPAA compliant geocoding software (via DeGAUSS), and 3) visualize data to inform SDOH projects (via Tableau). First, authors engaged key stakeholders across the health system to convey the implications of SDOH data for our patient population and identify variables of interest. As a result, fourteen publicly available data sets, accounting for >30,800 variables representing national, state, county, and census tract information over 2016–2019, were cleaned and integrated into our Data Warehouse. To pilot the data visualization, we created county and census tract level maps for our service areas and plotted common SDOH metrics (e.g., income, education, insurance status, etc.). This practical, methodological integration of SDOH data at a large health system demonstrated feasibility. Ultimately, we will repeat this process system wide to further understand the risk burden in our patient population and improve our prediction models – allowing us to become better partners with our community.

Abstract: The application of linear mixed models or generalized linear mixed models to large databases in which the level 2 units (hospitals) have a wide variety of characteristics is a problem frequently encountered in studies of medical quality. Accurate estimation of model parameters and standard errors requires accounting for the grouping of outcomes within hospitals. Including the hospitals as random effect in the model is a common method of doing so. However in a large, diverse population, the required assump tions are not satisfied, which can lead to inconsistent and biased parameter estimates. One solution is to use cluster analysis with clustering variables distinct from the model covariates to group the hospitals into smaller, more homogeneous groups. The analysis can then be carried out within these groups. We illustrate this analysis using an example of a study of hemoglobin A1c control among diabetic patients in a national database of United States Department of Veterans’ Affairs (VA) hospitals.

Abstract: Response variables that are scored as counts, for example, number of mastitis cases in dairy cattle, often arise in quantitative genetic analysis. When the number of zeros exceeds the amount expected such as under the Poisson density, the zero-inflated Poisson (ZIP) model is more appropriate. In using the ZIP model in animal breeding studies, it is necessary to accommodate genetic and environmental covariances. For that, this study proposes to model the mixture and Poisson parameters hierarchically, each as a function of two random effects, representing the genetic and environmental sources of variability, respectively. The genetic random effects are allowed to be correlated, leading to a correlation within and between clusters. The environmental effects are introduced by independent residual terms, accounting for overdispersion above that caused by extra-zeros. In addition, an inter correlation structure between random genetic effects affecting mixture and Poisson parameters is used to infer pleiotropy, an expression of the extent to which these parameters are influenced by common genes. The methods described here are illustrated with data on number of mastitis cases from Norwegian Red cows. Bayesian analysis yields posterior distributions useful for studying environmental and genetic variability, as well as genetic correlation.

Abstract: Information regarding small area prevalence of chronic disease is important for public health strategy and resourcing equity. This paper develops a prevalence model taking account of survey and census data to derive small area prevalence estimates for diabetes. The application involves 32000 small area subdivisions (zip code census tracts) of the US, with the prevalence estimates taking account of information from the US-wide Behavioral Risk Factor Surveillance System (BRFSS) survey on population prevalence differentials by age, gender, ethnic group and education. The effects of such aspects of population composition on prevalence are widely recognized. However, the model also incorporates spatial or contextual influences via spatially structured effects for each US state; such contextual effects are allowed to differ between ethnic groups and other demographic categories using a multivariate spatial prior. A Bayesian estimation approach is used and analysis demonstrates the considerably improved fit of a fully specified compositional-contextual model as compared to simpler ‘standard’ approaches which are typically limited to age and area effects.