Additional file 5: of DGCA: A comprehensive R package for Differential Gene Correlation Analysis

Full table for differential correlation output from the PTEN mutation study. The output of running DGCA on the PTEN pathway gene set in the breast cancer RNA-seq samples, comparing correlations of these genes with PTEN in non-mutated samples to correlations in PTEN-mutated samples. The “Classes” column indicates the correlation class of each of the genes where, e.g., “+/0” indicates a significant positive correlation (p < 0.05) in the non-mutated samples and no significant correlation in the PTEN -mutated samples. Note that the significance for the correlations within each condition is not adjusted for multiple comparisons. 10,000 permutation samples were generated in order to estimate empirical p-values, using a pooled reference distribution approach, from which q-values were calculated. WT = Wildtype, Mut. = Non-silent PTEN mutation. (TSV 10 kb)