Fig. 6

Connectivity map by GSEA identifies PI3K and other inhibitors for PTEN-low/miR-low subgroup of TNBC. a Connectivity scores (CS) of drug hits generated using the GSEA method and different sizes of the TNBC PTEN-low/miR-low subgroup of TNBC/ group “a” signature (four signature sizes). Each dot represents the connectivity score of a specific drug and colored to reflect the gene signature size used in the connectivity map analysis. Dots plotted represent drug hits that have a negative CS < (− 0.3) across all signature sizes. Dots above the CS line of − 0.5 indicate drugs that have a better ability to reverse the TNBC group “a” signature in the connectivity map analysis. b Structure of drugs that show consistent top hits (CS < − 0.5 across all gene signature sizes) by GSEA. c Venn diagram showing three drugs that appear in both GSEA and GWC analysis with 200 genes. Connectivity map analysis by GWC and additional Venn diagrams with different gene size are shown in Additional file 1: Figure S9 and 10