Pearson's correlation network
The Pearson correlation coefficient is calculated for each pairwise combination of markers. Statistical significance for connections between markers is estimated using a Student's t distribution and multiple hypothesis correction is performed according to Benjamini-Yekutieli FDR [Benjamini & Yekutieli 2001 Ann. Statist. 29:1165] (default) or Bonferroni to give a corrected p-value. The result is displayed as a network (a plot of markers connected pairwise by edges/lines) with a default significance threshold of FDR p≤0.05. The threshold value can subsequently be adjusted interactively.
Although well documented in the literature, Pearson's correlation is not robust to outliers and misses many non-linear classes of relationship [Steuer et al. 2002 Bioinformatics 18 Suppl2:S231].
Available for: continuous scoring
[Top]Viewing the results
See accessing and interpreting network results.
[Top]Example output
Figure 1: An example protein network with edges representing significant Pearson correlation relationships