Table 3.
Top 10 upregulated and 10 downregulated genes in susceptible versus healthy control breast.
| Gene Symbol | Gene Name | FCa,b | p valueb | Gene Symbol | Gene Name | FC | p value |
|---|---|---|---|---|---|---|---|
| Epithelium_Upregulated | Epithelium_Downregulated | ||||||
| AQP7 | aquaporin 7 | 2.5 | 1.2E-05 | ZFP57 | ZFP57 zinc finger protein | −29.0 | 3.8E-04 |
| AKR1C1 | aldo-keto reductase family 1 C1 | 4.3 | 1.2E-05 | SNORA13 | small nucleolar RNA, H/ACA box 13 | −4.3 | 6.1E-03 |
| XIRP2 | xin actin binding repeat containing 2 | 7.4 | 2.4E-05 | SAA4 | serum amyloid A4, constitutive | −2.5 | 6.9E-03 |
| SIM1 | single-minded transcription factor 1 | 5.4 | 6.2E-05 | MMP27 | matrix metallopeptidase 27 | −2.9 | 8.1E-03 |
| RBP4 | retinol binding protein 4 | 3.7 | 2.8E-04 | FN3KRP | fructosamine 3 kinase related protein | −1.4 | 8.3E-03 |
| PLIN1 | perilipin 1 | 3.9 | 3.1E-04 | TMEM229B | transmembrane protein 229B | −1.7 | 8.4E-03 |
| SORCS1 | sortilin related VPS10 receptor 1 | 3.0 | 3.7E-04 | TSPAN11 | tetraspanin 11 | −1.7 | 8.6E-03 |
| LIPE | lipase E, hormone sensitive type | 2.2 | 4.4E-04 | EMX2 | empty spiracles homeobox 2 | −2.1 | 1.0E-02 |
| ADIPOQ | adiponectin | 3.8 | 1.9E-03 | CXCR6 | C-X-C motif chemokine receptor 6 | −1.7 | 1.1E-02 |
| CD36 | CD36 molecule | 1.7 | 4.3E-03 | LILRA1 | leukocyte Ig like receptorA1 | −1.9 | 1.1E-02 |
| Stroma_Upregulated | Stroma_Downregulated | ||||||
| MAPK10 | mitogen-activated protein kinase 10 | 1.6 | 4.1E-04 | ANKRD36BP2 | ankyrin repeat domain 36B pseudogene2 | −2.1 | 2.1E-05 |
| DDIT4 | DNA damage inducible transcript 4 | 1.7 | 7.8E-04 | LRGUK | leucine repeats and guanylate kinase | −2.3 | 1.2E-04 |
| TCAP | titin-cap | 2.6 | 8.6E-04 | GAS2 | growth arrest specific 2 | −2.4 | 1.6E-04 |
| ALDH1L1 | aldehyde dehydrogenase 1 L1 | 2.7 | 1.0E-03 | WNT10A | Wnt family member 10A | −2.1 | 1.7E-04 |
| TNNC2 | troponin C2, fast skeletal type | 2.9 | 1.1E-03 | DERL3 | derlin 3 | −2.1 | 2.9E-04 |
| SLC7A10 | solute carrier family 7 member 10 | 3.3 | 1.2E-03 | PIM2 | Pim-2 proto-oncogene | −2.0 | 3.2E-04 |
| FAH | fumarylacetoacetate hydrolase | 1.8 | 1.3E-03 | GPR15 | G protein-coupled receptor 15 | −6.6 | 3.4E-04 |
| TNNT1 | troponin T1, slow skeletal type | 4.8 | 2.0E-03 | CD38 | CD38 molecule | −1.8 | 4.8E-04 |
| HK2 | hexokinase 2 | 2.0 | 2.7E-03 | TNFRSF18 | TNF receptor superfamily member 18 | −3.4 | 1.2E-03 |
| NAT8L | N-acetyltransferase 8 like | 2.5 | 5.4E-03 | NLRP11 | NLR family pyrin domain containing 11 | −6.9 | 1.2E-03 |
| Adipose Tissue_Upregulated | Adipose Tissue_Downregulated | ||||||
| IDH2 | isocitrate dehydrogenase 2 | 1.7 | 8.3E-04 | CPA4 | carboxypeptidase A4 | −6.2 | 5.8E-04 |
| RIMS2 | regulating synaptic exocytosis2 | 9.5 | 8.4E-04 | FCHO1 | FCH domain only 1 | −2.7 | 5.8E-04 |
| SPTB | spectrin beta, erythrocytic | 2.5 | 8.8E-04 | CES4A | carboxylesterase 4A | −2.1 | 8.3E-04 |
| NTS | neurotensin | 7.3 | 1.6E-03 | CAMK2B | calcium/calmodulin dependent kinase II β | −4.9 | 1.0E-03 |
| BRIP1 | BRCA1 interacting protein 1 | 2.1 | 2.1E-03 | ASGR1 | asialoglycoprotein receptor 1 | −4.2 | 2.7E-03 |
| ETV2 | ETS variant 2 | 3.6 | 2.1E-03 | ZDHHC11 | zinc finger DHHC-type containing 11 | −2.1 | 2.8E-03 |
| SLC6A13 | solute carrier family 6 member 13 | 3.7 | 3.6E-03 | APOBEC3G | apolipoprotein B mRNA editing 3G | −1.7 | 3.5E-03 |
| FKBP5 | FK506 binding protein 5 | 1.9 | 4.4E-03 | UCP3 | uncoupling protein 3 | −2.5 | 3.9E-03 |
| RTN1 | reticulon 1 | 1.7 | 5.0E-03 | DPYSL4 | dihydropyrimidinase like 4 | −2.8 | 4.1E-03 |
| FABP4 | fatty acid binding protein 4 | 2.3 | 4.7E-03 | BLNK | B-cell linker | −1.8 | 7.9E-03 |
aFold Change.
bobtained from EdgeR using negative binomial model-based method.