MetScape Plugin for Cytoscape
Please note that this version of MetScape is out of date. For the current version, go to MetScape 3
The MetScape Plugin for Cytoscape provides a bioinformatics framework for the visualization and interpretation of metabolomic and expression profiling data in the context of human metabolism. It allows users to build and analyze networks of genes and compounds, identify enriched pathways from expression profiling data, and visualize changes in metabolite data. Gene expression and/or compound concentration data can be loaded from file(s) (in CSV, TSV, or Excel formats), or the user can directly enter individual compounds/genes (using KEGG compound IDs, or Entrez Gene IDs) to build metabolic networks without loading a file. MetScape uses an internal relational database stored at NCIBI that integrates data from KEGG and EHMN.
Gilbert S. Omenn
Please report any problems to firstname.lastname@example.org
NCIBI is funded by the National Institutes of Health: Grant #U54 DA021519. PI: Brian Athey
Pilot and feasibility grant from Michigan Diabetes Research and Training Center. PI : Alla Karnovsky
Karnovsky A, Weymouth T, Hull T, Tarcea VG, Scardoni G, Laudanna C, Sartor MA, Stringer KA, Jagadish HV, Burant C, Athey B, Omenn GS.
Metscape 2 Bioinformatics Tool for the Analysis and Visualization of Metabolomics and Gene Expression Data.
Bioinformatics. 2011 Nov 30
Jing Gao, V. Glenn Tarcea, Alla Karnovsky, Barbara R. Mirel, Terry E. Weymouth, Christopher W. Beecher, James D. Cavalcoli, Brian D. Athey, Gilbert S. Omenn, Charles F. Burant, and H. V. Jagadish
Metscape: a Cytoscape plug-in for visualizing and interpreting metabolomic data in the context of human metabolic networks