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Gene expression data visualization tool on the o²S²PARC platform.

Hiba Ben Aribi1, Mengyuan Ding2, Anmol Kiran3,4

  • 1Faculty of Sciences of Tunis, University of Tunis El Manar (UTM), Tunis, Tunisia.

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Summary
This summary is machine-generated.

This study introduces a new o²S²PARC tool for visualizing gene expression data, aiding in the identification of differentially expressed genes (DEGs) and their biological roles for genetic disease research.

Keywords:
Gene expressionOntologyVisualizationo²S²PARC

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Area of Science:

  • Bioinformatics
  • Genomics
  • Computational Biology

Background:

  • Differential gene expression analysis is crucial for identifying biomarkers and therapeutic targets in genetic diseases.
  • Understanding gene functions, biological processes, and cellular components associated with gene expression changes is essential.

Purpose of the Study:

  • To develop an interactive pipeline for gene expression data visualization, ontological mapping, and statistical evaluation using the o²S²PARC platform.
  • To demonstrate the utility of the developed tool through a case study.

Main Methods:

  • Development of an o²S²PARC template for an interactive gene expression analysis pipeline.
  • Implementation of visualization tools including volcano plots for differentially expressed genes (DEGs).
  • Integration of ontological mapping and visualization using barplots.

Main Results:

  • The developed tool successfully identifies DEGs and presents them in an interactive volcano plot.
  • Associated ontologies for DEGs are assigned and visualized, providing insights into biological context.
  • A case study confirmed the tool's effectiveness on a publicly available dataset.

Conclusions:

  • The o²S²PARC platform now hosts a user-friendly "Expression data visualization" template.
  • This tool facilitates the exploration of gene expression data for genetic disease research.
  • The template is publicly accessible, promoting wider adoption and research advancement.