Results of a WGCNA of 82 breast cancer patients and 26 markers. A. Markers were clustered according to their expression levels across patient samples, so that each branch of the tree indicates a patient. The first row of white, grey and black colors below the tree indicates WGCNA patient groups that correspond to clusters of patients that have similar marker expression profiles. The second row consists of WGCNA* groups which is an approximation to WGCNA that relies on only three of the 26 markers. Subsequent rows consist of clinical variable data, where black matches with unfavorable prognostic factors, white is favorable, grey is intermediate, and yellow indicates missing data. Stage was coded as 1-3 with stage 1 colored white (there was one stage 4 patient that we re-coded as stage 3). Grade was coded as 1-3 with grade 1 colored white. Her2+, ER- and PR- were colored black. The presence of lymph node involvement (LNI) and metastasis were colored black. Tumor size was re-coded as quantiles, where tumors smaller than the 25th percentile were colored white, tumors between the 25th-75th percentiles were colored grey, and sizes greater than or equal to the 75th percentile were colored black. B-C. WGCNA patient groups correspond to low, moderate (mod.) and high mortality. D. An approximation to the WGCNA groups "WGCNA*" that uses a subset of three markers (rather than the full marker set) is also highly related to patient survival.
Presson et al. BMC Cancer 2011 11:230 doi:10.1186/1471-2407-11-230