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An Integrated Approach for Microprotein Identification and Sequence Analysis
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Genome Context Viewer: visual exploration of multiple annotated genomes using microsynteny.

Alan Cleary1,2, Andrew Farmer2

  • 1Gianforte School of Computing, Montana State University, Bozeman, MT 59717, USA.

Bioinformatics (Oxford, England)
|December 2, 2017
PubMed
Summary

The Genome Context Viewer (GCV) tool aids researchers in comparing genome data across multiple sources. It visualizes gene content and structural variations within syntenic regions, facilitating discovery of evolutionary insights.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Comparative Genomics

Background:

  • Comparative genomics requires tools to analyze gene content and structural variations across different species.
  • Visualizing syntenic regions and gene family memberships is crucial for understanding genome evolution.

Purpose of the Study:

  • To introduce the Genome Context Viewer (GCV), a visual data-mining tool for comparative genomics.
  • To enable users to search and compare genome data from multiple providers based on shared functional elements.

Main Methods:

  • The GCV tool handles ordered sequences of gene family memberships as searchable units.
  • It aligns and visualizes genomic regions based on shared functional elements.
  • The interface facilitates assessment of gene content divergence and structural events within syntenic contexts.

Main Results:

  • The GCV provides an intuitive user interface for assessing genome divergence.
  • It allows for the identification of similar annotated regions across multiple genome data providers.
  • The tool aids in the detection of structural variations within syntenic regions.

Conclusions:

  • The Genome Context Viewer (GCV) offers a powerful visual approach for comparative genomics.
  • It simplifies the exploration of gene content and structural differences in related genomes.
  • GCV serves as a gateway to more detailed data exploration in provider-specific tools.