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Related Experiment Videos

Color graphics representations of large sequences in the GEM environment.

R J Douthart1, J E Schmaltz, J J Thomas

  • 1Pacific Northwest Laboratory, Richland, WA 99352.

Nucleic Acids Research
|March 11, 1988
PubMed
Summary

The CAGE/GEM software system offers advanced color graphics for visualizing genetic sequences up to 500,000 bases. It aids in analyzing and displaying complex genomic data, including bacteriophage lambda and Epstein Barr virus.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Genomic sequence analysis requires effective visualization tools.
  • Managing and interpreting large datasets of genetic information presents challenges.

Purpose of the Study:

  • To describe the CAGE/GEM software system's analytical and descriptive color graphics capabilities.
  • To demonstrate the utility of the GEM environment for visualizing complex genomic data.

Main Methods:

  • Utilized bacteriophage lambda and Epstein Barr virus genomes as examples.
  • Employed the CAGE/GEM software system, including its overlay editor utility.
  • Displayed genetics, features, and sequence analysis results using color graphics at various zoom levels.

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Main Results:

  • Simultaneous display of genetic features and sequence analysis results in pseudo-colored representations.
  • The system supports sequence sizes up to 5 x 10(5) bases.
  • The overlay editor facilitates the management of complex sequence-associated data.

Conclusions:

  • The GEM environment provides a powerful tool for holistic analysis of genomic data.
  • CAGE/GEM enhances the understanding of viral genomes through integrated visualization.
  • The software is suitable for managing and interpreting large-scale genetic information.