Table 1. Top 20 identified genes for each Marker Cluster identified across HER2+, Luminal A/B and TNBC subtypes.
| Marker Cluster 1 (Mosaic) |
Marker Cluster 2 (High in TNBC) |
Marker Cluster 3 (Luminal A/B) |
Marker Cluster 4 (HER2+) |
|---|---|---|---|
| AR | SOX10 | PGR | ERBB2 |
| PIP | ROPN1 | ESR1 | CEACAM5 |
| CLC7A2 | GABRP | CCDC170 | CEACAM6 |
| ABCC8 | VGLL1 | GRPR | ABCC11 |
| F7 | MSLN | WNK4 | NXPH1 |
| BCAS1 | CA9 | CHAD | ABCC12 |
| CA12 | GABBR2 | AFF3 | GRB7 |
| BPIFB2 | HORMAD1 | GFRA1 | PNMT |
| DHRS2 | ZIC1 | CPB1 | MUCL1 |
| TMC5 | ART3 | CLSTN2 | LRRC26 |
| ARG2 | FABP7 | PGLYRP2 | UGT2B11 |
| GATA3 | A2ML1 | KCNJ3 | PP14571 |
| SCGB2A2 | FDCSP | NEK10 | DSCAM-AS1 |
| LRRC31 | PRAME | GRIK3 | |
| MLPH | KRT16 | DNALI1 | |
| FOXA1 | SBSN | SERPINA6 | |
| HMGCS2 | PPP1R14C | SYT9 | |
| TTC6 | CT83 | NAT1 | |
| CYP4B1 | NKX1-2 | CST9 | |
| SYTL5 | AGR3 |
The four Marker Clusters (and the putative group that they define) are provided with the top genes identified for each cluster with an FDR-adjusted p-value <0.01 and a log2 fold-change > 4 between the lowest and highest expressing subtypes. For clusters with more than 20 genes, only the top 20 are shown here. These genes correspond to those identified by hierarchical clustering in Figure 2.