Pathway viewer

A pathway viewer has been develop in order to make easier the visualization of the comparison results.

You can select the pathway to see in the Pathways list (1). You can also visualize a single circuit by clicking on its name (3) in the Available circuits list (2). Circuits depicted in blue are significantly down-regulated circuits whereas those depicted in red are significantly up-regulated ones (p-value = 0.05). Circuits depicted in grey are not significant.

The information summarized in the pathway viewer includes:

Node's shape:

• Rectangles correspond to metabolic enzymatic.
• Circles represent metabolites.

Node's color:

• Blue for down-regulated reactions, red for up-regulated reactions and grey for not significant genes.
• The intensity of the color depends on the significance of the differential expression.

Edge's shape: Edges represent direction of the production by classic arrows.

• Also gives information about reversible and irreversible reactions

Edge's color:

• Modules which are up-regulated in the disease condition have their arrows colored in red.
• Modules which are down-regulated in the disease condition have their arrows colored in blue.
• Modules which are not significant for the test have their arrows colored in grey.