Background: Visualization can be a powerful tool to comprehend data sets, especially when they can be represented via hierarchical structures. Enhanced comprehension can facilitate the development of scientific hypotheses. However, the inclusion of excessive data can make visualizations overwhelming.
Objective: We developed a visual interactive analytic tool for filtering and summarizing large health data sets coded with hierarchical terminologies (VIADS). In this study, we evaluated the usability of VIADS for visualizing data sets of patient diagnoses and procedures coded in the International Classification of Diseases, Ninth Revision, Clinical Modification (ICD-9-CM).
Methods: We used mixed methods in the study. A group of 12 clinical researchers participated in the generation of data-driven hypotheses using the same data sets and time frame (a 1-hour training session and a 2-hour study session) utilizing VIADS via the think-aloud protocol. The audio and screen activities were recorded remotely. A modified version of the System Usability Scale (SUS) survey and a brief survey with open-ended questions were administered after the study to assess the usability of VIADS and verify their intense usage experience with VIADS.
Results: The range of SUS scores was 37.5 to 87.5. The mean SUS score for VIADS was 71.88 (out of a possible 100, SD 14.62), and the median SUS was 75. The participants unanimously agreed that VIADS offers new perspectives on data sets (12/12, 100%), while 75% (8/12) agreed that VIADS facilitates understanding, presentation, and interpretation of underlying data sets. The comments on the utility of VIADS were positive and aligned well with the design objectives of VIADS. The answers to the open-ended questions in the modified SUS provided specific suggestions regarding potential improvements for VIADS, and the identified problems with usability were used to update the tool.
Conclusions: This usability study demonstrates that VIADS is a usable tool for analyzing secondary data sets with good average usability, good SUS score, and favorable utility. Currently, VIADS accepts data sets with hierarchical codes and their corresponding frequencies. Consequently, only specific types of use cases are supported by the analytical results. Participants agreed, however, that VIADS provides new perspectives on data sets and is relatively easy to use. The VIADS functionalities most appreciated by participants were the ability to filter, summarize, compare, and visualize data.
International Registered Report Identifier (irrid): RR2-10.2196/39414.
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http://dx.doi.org/10.2196/44644 | DOI Listing |
Cancer Genet
December 2024
Department of Otolaryngology, University of Minnesota, MMC396, 420 Delaware St SE, Minneapolis, MN 55455, USA.
Objective: Studies of squamous cell carcinoma of the head and neck (HNSCC) have demonstrated the importance of nuclear receptors and their associated coregulators in the development and treatment of HNSCC. We sought to characterize members of the nuclear receptor super family through interrogation of RNA-Seq and microarray data.
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Curr Opin Plant Biol
January 2025
Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, USA.
Plant diseases constantly threaten crops and food systems, while global connectivity further increases the risks of spreading existing and exotic pathogens. Here, we first explore how an integrative approach involving plant pathway knowledgegraphs, differential gene expression data, and biochemical data informing Raman spectroscopy could be used to detect plant pathways responding to pathogen attacks. The Plant Reactome (https://plantreactome.
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Institut Camille Jordan, UMR 5208, Université Claude Bernard Lyon 1, Bat. Braconnier, 43, blvd du 11 novembre 1918, F - 69622, Villeurbanne Cedex, France.
Based on the expectile loss function and the adaptive LASSO penalty, the paper proposes and studies the estimation methods for the accelerated failure time (AFT) model. In this approach, we need to estimate the survival function of the censoring variable by the Kaplan-Meier estimator. The AFT model parameters are first estimated by the expectile method and afterwards, when the number of explanatory variables can be large, by the adaptive LASSO expectile method which directly carries out the automatic selection of variables.
View Article and Find Full Text PDFJ Chem Inf Model
January 2025
Department of Urology, Ji'an Third People's Hospital, Ji'an 343000, Jiangxi, China.
As combination therapy becomes more common in clinical applications, predicting adverse effects of combination medications is a challenging task. However, there are three limitations of the existing prediction models. First, they rely on a single view of the drug and cannot fully utilize multiview information, resulting in limited performance when capturing complex structures.
View Article and Find Full Text PDFMol Ecol Resour
January 2025
Section for Molecular Ecology and Evolution, Globe Institute, University of Copenhagen, Copenhagen, Denmark.
Reduced representation sequencing (RRS) has proven to be a cost-effective solution for sequencing subsets of the genome in non-model species for large-scale studies. However, the targeted nature of RRS approaches commonly introduces large amounts of missing data, leading to reduced statistical power and biased estimates in downstream analyses. Genotype imputation, the statistical inference of missing sites across the genome, is a powerful alternative to overcome the caveats associated with missing sites.
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