Circuit values

Here you will find descriptive information about the matrix of circuit/path values.

• Path values: You can download the matrix of circuit values by clicking on Path values.
• Heatmap: A heatmap is a graphical representation of the values of a matrix. A not-supervised clustering is performed on the data per columns (samples). A good separation between the two colors of the upper bar of the heatmap indicates that the differences between the two groups are big enough to discriminate between them.
• PCA: A Principal Components Analysis is performed in order to see if the matrix contains information enough to separate between the two groups.
• Path significance: Ordered table of circuit significance. More significant circuits are displayed in the upper part of the table. For each circuit, the following information is shown:
  • circuit/term: Code identifying the circuit consisting in the name of the pathway to which it belongs and the effector (last) node of the path (pathway Name : Effector).
  • UP/DOWN: Up when the circuit is up-regulated in the disease case, DOWN otherwise.
  • statistic: Statistic of the Wilcoxon test performed between conditions.
  • p.value: P-value of the statistic test.
  • FDRp.value: Adjusted p-value of the statistic test using the FDR method.
  • Fold Change: is a measure describing how much the circuit activity changes between conditions.reed more about Fold Change
  • logFC: The logarithm to base 2 of calculated Fold change.