ExprEssence is a Cytoscape plugin analyzing a network of genes/proteins together with differential biological data, as measured in an experiment. It highlights the links across which the largest amount of change can be observed, given two experimental data sets. More specifically, ExprEssence condenses networks so that they contain only those links between genes/proteins, along which a large amount of change in (expression) values takes place. These links are called most differentially altered. The percentage of most differentially altered links to be highlighted can be set by the user, using a slider. Highlighting identifies hypotheses about the startup or the shutdown of interactions, stimulations and inhibitions.
