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- Title
DExplore: An Online Tool for Detecting Differentially Expressed Genes from mRNA Microarray Experiments.
- Authors
Katsiki, Anna D.; Karatzas, Pantelis E.; De Lastic, Hector-Xavier; Georgakilas, Alexandros G.; Tsitsilonis, Ourania; Vorgias, Constantinos E.
- Abstract
Simple Summary: DExplore is a user-friendly web application addressing challenges in analyzing mRNA microarray experiments for gene expression profiling. For over fifteen years, microarray experiments have played a vital role in understanding gene expression in various conditions. DExplore, built with the R programming language, Shiny package, and Bioconductor, caters to researchers lacking programming skills. It facilitates the detection of differentially expressed genes using data from the NCBI Gene Expression Omnibus (GEO) and integrates with WebGestalt for functional enrichment analysis. DExplore incorporates visualization plots, enhancing the interpretability of analysis results. These plots provide researchers with deeper insights into gene expression patterns, facilitating informed decision-making. The application's versatility extends to a Docker image available on Docker Hub, enabling local usage of data not submitted to GEO. Currently tailored for the Affymetrix platforms, DExplore serves as a powerful application, simplifying the analysis of high-throughput data. This online accessible tool empowers molecular biologists to focus on a smaller number of biologically relevant genes, eliminating complexity and enhancing the utility of publicly available data in advancing gene expression research. DExplore is a free and open-source web application. Microarray experiments, a mainstay in gene expression analysis for nearly two decades, pose challenges due to their complexity. To address this, we introduce DExplore, a user-friendly web application enabling researchers to detect differentially expressed genes using data from NCBI's GEO. Developed with R, Shiny, and Bioconductor, DExplore integrates WebGestalt for functional enrichment analysis. It also provides visualization plots for enhanced result interpretation. With a Docker image for local execution, DExplore accommodates unpublished data. To illustrate its utility, we showcase two case studies on cancer cells treated with chemotherapeutic drugs. DExplore streamlines microarray data analysis, empowering molecular biologists to focus on genes of biological significance.
- Subjects
GENE expression; GENES; GENE expression profiling; MOLECULAR biologists; WEB-based user interfaces
- Publication
Biology (2079-7737), 2024, Vol 13, Issue 5, p351
- ISSN
2079-7737
- Publication type
Article
- DOI
10.3390/biology13050351