Table 2.

Selected genes from pathway analysis with significant relative overexpression (>2-fold, Benjamini–Hochberg P ≤ 0.05) in discovery and validation sets

TNBC subtypeSymbolDescriptionDiscovery FCDruggableCNV seen
1. LARDHRS2Dehydrogenase/reductase (SDR family) member 268.6
PIPProlactin-induced protein21.1
AGR2Anterior gradient 2 homolog (Xenopus laevis)17.1Yes
FOXA1Forkhead box A117.1Yes
ESR1Estrogen receptor 113.9Yes
ERBB4v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian)11.3Yes
CA12Carbonic anhydrase XII11.3Yes
ARAndrogen receptor9.8Yes
TOX3TOX high mobility group box family member 37.5Yes
KRT18Keratin 184.3Yes
MUC1Mucin 1, cell surface associated4.3Yes
PGRProgesterone receptor3.5Yes
ERBB3v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian)3Yes
RETRet proto-oncogene2.5Yes
ITGB5Integrin, beta 52.1Yes
2. MESADH1BAlcohol dehydrogenase 1B (class I), beta polypeptide42.2Yes
ADIPOQAdiponectin, C1Q and collagen domain containing32
FABP4Fatty acid–binding protein 4, adipocyte14.9
CD36CD36 molecule (thrombospondin receptor)14.9
NTRK2Neurotrophic tyrosine kinase, receptor, type 26.1Yes
EDNRBEndothelin receptor type B5.7Yes
GHRGrowth hormone receptor4.9Yes
ADRA2AAdrenoceptor alpha 2A4.6Yes
PLA2G2APhospholipase A2, group IIA (platelets, synovial fluid)4.6Yes
PPARGPeroxisome proliferator–activated receptor gamma4Yes
ADRB2Adrenoceptor beta 2, surface3.5Yes
PTGER3Prostaglandin E receptor 3 (subtype EP3)3.2Yes
IL1R1Interleukin 1 receptor, type I3Yes
TEKTEK tyrosine kinase, endothelial2.8Yes
3. BLISELF5E74-like factor 5 (ets domain transcription factor)7
HORMAD1HORMA domain containing 15.7Yes
SOX10SRY (sex-determining region Y)-box 104.9Yes
SERPINB5Serpin peptidase inhibitor, clade B (ovalbumin), member 54.6
FOXC1Forkhead box C14.6
SOX8SRY (sex-determining region Y)-box 84.3
TUBB2BTubulin, beta 2B class IIb3.2Yes
VTCN1V-set domain containing T-cell activation inhibitor 13
SOX6SRY (sex-determining region Y)-box 63
KITv-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog2.5Yes
FGFR2Fibroblast growth factor receptor 22YesYes
4. BLIACXCL9Chemokine (C-X-C motif) ligand 95.3
IDO1Indoleamine 2,3-dioxygenase 14.9
CXCL11Chemokine (C-X-C motif) ligand 114.9
RARRES1Retinoic acid receptor responder (tazarotene induced) 14Yes
GBP5Guanylate-binding protein 54.3Yes
CXCL10Chemokine (C-X-C motif) ligand 104.3Yes
CXCL13Chemokine (C-X-C motif) ligand 134.3
LAMP3Lysosomal-associated membrane protein 33.7Yes
STAT1Signal transducer and activator of transcription 1, 91kDa3
PSMB9Proteasome (prosome, macropain) subunit, beta type, 92.8Yes
CD2CD2 molecule2.5Yes
CTLA4Cytotoxic T lymphocyte–associated protein 42.5Yes
TOP2ATopoisomerase (DNA) II alpha 170kDa2.1YesYes
LCKLymphocyte-specific protein tyrosine kinase2.1Yes