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We calculated the Pearson correlation coefficient between the centroids of the original good prognosis template (as described in [17]) and the centroids of each sample with regard to the 60 genes.
By computing the Pearson correlation coefficient of the expression values of these genes and the centroids of the original good prognosis template [17], a prognostic class can be assigned to each sample.
The average correlation to the good prognosis template was 0.430 with a standard deviation of 0.027.
The other sample (LRC) was classified as good prognosis (average correlation to the good prognosis template of 0.61).
One sample (HRC) was classified as poor prognosis with an average cosine correlation to the good prognosis template of -0.44.
A patient with a cosine correlation to the good prognosis template higher than 0.4 (the previously determined threshold [ 6]) was assigned to the good-profile group.
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