Fig. 3
Guilt-by-association (GBA) analysis. a Schema graph showing approach used to search for lncRNA genes as surrogates of each cluster. Briefly, Pearson correlation was computed between all lncRNAs and artificial expression vectors or templates (templates t1 to t5) whereby maximum expression in individual clusters with respect to the others was interrogated. Threshold used: r > 0.3 and p val <1 × 10−6. Additional filtering criteria include average RPKM ≥0.1 within specific clusters and overexpression between normal tissue and specific clusters (T test, corrected p val <0.05). b Heatmap exhibiting selected lncRNAs upon Pearson correlation and the corresponding gene numbers per cluster. Heatmaps of PCGs directly (overexpressed PCGs) (c) or inversely (underexpressed PCGs) (d) correlated with the lncRNAs selected per cluster in b. Threshold used: r > 0.3 and p val <1 × 10−9 for overexpressed PCGs; r < −0.3 and p val <1 × 10−9 for underexpressed PCGs