4D bioinformatics: A new look at the ribosome as an example

Gerald Quon, Paul Gordon, Christoph W. Sensen

Research output: Contribution to journalArticle

6 Scopus citations

Abstract

We have adapted the Java Molecular Viewer (JMV) to virtual reality display environments, through a number of extensions to the Java 3D code. Phylogenetic information derived from multiple alignments (temporal information) can be overlaid onto molecule structures (spatial information). The number of sequences included in the underlying multiple alignment can be changed instantaneously, resulting in dynamical updates of the displayed information. JMV was also extended to handle an infinite number of objects (molecules) in the same display. The objects can be manipulated in six degrees of freedom simultaneously or independently. We have used the small subunit ribosomal RNA to demonstrate the system (http://cave.ucalgary.ca), which can be used for any molecule with a resolved structure.

Original languageEnglish (US)
Pages (from-to)279-283
Number of pages5
JournalIUBMB Life
Volume55
Issue number4-5
DOIs
StatePublished - Apr 1 2003
Externally publishedYes

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Keywords

  • 16S RNA
  • 4D Bioinformatics
  • CAVE
  • Java 3D
  • Java Molecular Viewer
  • Virtual reality

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Genetics
  • Clinical Biochemistry
  • Cell Biology

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