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Related Experiment Videos

MappetShow: non-linear visualization for genome data.

F Guyon1, G Vaysseix, E Barillot

  • 1GIS Infobiogen, Villejuif, France.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
|July 21, 2000
PubMed
Summary
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Genome mapping projects generate dense maps, making comparative visualization crucial. MappetShow offers efficient viewing and comparison of these complex genomic maps using non-linear visualization techniques.

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Genome mapping projects are producing increasingly dense genetic maps with thousands of markers per chromosome.
  • Comparative genomics and synteny analysis are vital for enriching and refining genetic maps, especially from related genomes.

Purpose of the Study:

  • To introduce MappetShow, a novel map viewer designed for clear visualization and efficient comparison of very dense genome maps.
  • To demonstrate the utility of non-linear viewing concepts in molecular biology data visualization.

Main Methods:

  • Development of MappetShow, a Java-based map viewer utilizing non-linear viewing principles.
  • Implementation of a map description language to ensure data source independence.
  • Testing MappetShow with diverse data sources including Object Request Broker, Object-Oriented Databases, and flat data streams.

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Main Results:

  • MappetShow provides a clear and effective way to view and compare highly dense genome maps.
  • The software successfully integrated data from varied sources, showcasing its flexibility.
  • The non-linear viewing approach proved effective for complex genomic data visualization.

Conclusions:

  • MappetShow is a valuable tool for researchers working with dense genome maps and comparative genomics.
  • Non-linear viewing is a promising concept for advancing molecular biology data visualization.
  • The software's architecture ensures adaptability to different data management systems.