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Related Experiment Video

Updated: Feb 17, 2026

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
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Gene Graphics: a genomic neighborhood data visualization web application.

Katherine J Harrison1, Valérie de Crécy-Lagard1, Rémi Zallot1

  • 1Department of Microbiology and Cell Science, University of Florida, Gainesville, FL 32611, USA.

Bioinformatics (Oxford, England)
|December 12, 2017
PubMed
Summary

Gene Graphics is a new web tool that generates high-quality visuals of gene clusters for comparative genomics research. It simplifies the creation of publication-ready graphics from various data sources.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Comparative genomics relies on analyzing gene neighborhoods to understand genome evolution.
  • Existing tools lack the capability to generate publication-quality graphics of gene clusters.

Purpose of the Study:

  • To introduce Gene Graphics, a web application designed for creating high-quality visuals of gene clusters.
  • To provide a user-friendly tool for researchers in comparative genomics.

Main Methods:

  • Gene Graphics accepts various input formats, including NCBI identifiers, GenBank files, and SEED data.
  • It allows customization of gene and genome names, colors, and sizes.
  • The tool supports exporting graphics in standard publication formats like PNG, SVG, TIFF, and EPS.

Main Results:

  • Gene Graphics enables automatic fetching of neighboring gene information.
  • Users can easily customize gene representations and copy/paste attributes for homologous genes across species.
  • The application provides tutorials with real-life examples for user training.

Conclusions:

  • Gene Graphics addresses the need for effective visualization tools in comparative genomics.
  • The application facilitates the creation of publication-ready gene cluster graphics, enhancing research dissemination.