MetScape Plugin for Cytoscape

Visualize compound networks and display related information about reactions, enzymes, and pathways.

Launch Cytoscape w/ Metscape Plugin via Java Web Start

Download MetScape Plugin via metscape.ncibi.org
User Guide
Technical Support

Metscape is a Cytoscape plugin used to visualize and analyze metabolomic data. It uses the data from Edinburgh Human Metabolic Network reconstruction (Ma et al., Mol Syst Biol. 2007; 3: 135). MetScape allows you to visualize compound networks and display related information about reactions, enzymes, and pathways.

Using a modified DynamicXpr plugin, you can upload experimental metabolomic data and visualize the networks evolution over time or conditions by observing the changing node colors or sizes. MetScape allows you to display the entire metabolic network or pathways-specific networks. You can apply a pathway filter to a network to create sub networks from resulting subsets of compounds. In the future, we will integrate MiMI, a database of gene, gene product, interaction and pathways, to show gene related information.

References

Gao J, Tarcea VG, Karnovsky A, Mirel BR, Weymouth TE, Beecher CW, Cavalcoli JD, Athey BD, Omenn GS, Burant CF, Jagadish HV. Metscape: a Cytoscape plug-in for visualizing and interpreting metabolomic data in the context of human metabolic networks. Bioinformatics. 2010 Apr 1.