SpotXplore: a Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks

Bioinformatics. 2010 Nov 15;26(22):2922-3. doi: 10.1093/bioinformatics/btq535. Epub 2010 Sep 21.

Abstract

SpotXplore is a plugin for Cytoscape for extraction and visualization of differentially expressed subnetworks (hotspots) from gene networks. The hotspot-based visualization approach enables interactive exploration of regulatory interactions in differentially expressed gene sets, and it allows a researcher to explore gene expression in direct relation to the affected cellular gene network. The hotspots provide a view beyond the commonly used metabolic pathways and gene ontologies.

Availability: http://www.win.tue.nl/∼mwestenb/spotxplore/.

MeSH terms

  • Computational Biology / methods*
  • Databases, Genetic
  • Gene Regulatory Networks / genetics*
  • Software*
  • User-Computer Interface