Group analysis plots and graphs

After a group analysis has completed, additional toolbar buttons appear on the Group Analyses panel to show applicable visualization graphs.

Graphs include:

• Coverage — (Available when at least two proteins are selected in the Data panel.) Select to view the Coverage graph. Visualize the amino acid sequence of your selected protein and the regions where measured peptides map. Coverage is represented as a percent (%) of sequence observed by measured peptides.

• Volcano Plot — Select to view the Volcano plot. Visualize a scatterplot showing the statistic significance (P value) in abundance differences between your compared groups versus the magnitude of the change (Fold Change).

• Box Plots — (Available only for significant proteins.) — Select to view the Box Plots graph. Visualize the intensity differences between groups of significantly different proteins.

• PPI Network — (Available only for significant proteins.) — Select to view the PPI Network graph. Visualize a network plot showing protein-protein interactions between proteins with significantly different abundances between compared groups.

• Clustered Heatmap — Select to view the Clustered Heatmap graph. Visualize protein abundances across samples, with both proteins (rows) and samples (columns) clustered based on algomerative nesting.

• Enrichment — (Available only for significant proteins.) — Select to view the Enrichment graph. Functionally characterize proteins showing abundance differences between conditions compared, by performing gene ontology (GO) term enrichment.