Supplementary Figure 1. Flowchart of patients included in the training set.

273fresh frozen

tissue samples

199microarray analysis

performed

74 excluded47 with highly degraded RNA16 with low concentration of RNA

5 with good quality RNA, but nomicroarray performed,

6 without RNA extracted

8 excluded4 with microarray of inferior

quality4 with good quality array, but

with < 5% invasive carcinomain frozen sample

191successful microarray analysis from verified

tumor tissue (FFT)

191training set

FFT

146available from formalin-

fixed, paraffin-embedded (FFPE)

45 excluded 33 with no corresponding

paraffin blocks available4 with < 5% invasive carcinoma8 with insufficient RNA yield

146training set

FFPE