Table 2.
| a. Untreated controls (n = 8): dysregulated genes over time (core needle biopsy to surgery). Probes sorted by ascending fold change. Probe sets sorted by Log2Fold Change. | |||||
|---|---|---|---|---|---|
| Target ID | Symbol | Definition | Function | Log 2 Fold Change |
p-value |
| GI_19924137-S | RAD23A | RAD23 homolog A (S. cerevisiae) (RAD23A); mRNA. |
DNA repair | −1.95 | 0.0020 |
| GI_4885214-S | ERBB4 | v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian) (ERBB4); mRNA. |
Cell proliferation; pro-mitotic |
−1.91 | 0.0043 |
| GI_7549801-S | BAG1 | BCL2-associated athanogene (BAG1); mRNA. |
Anti-Apoptosis | −1.85 | 0.0012 |
| GI_19482173-S | CUL2 | cullin 2 (CUL2); mRNA. | Pro-Apoptosis & Cell cycle negative regulator |
−1.78 | 0.0036 |
| GI_19482173-S | CUL2 | cullin 2 (CUL2); mRNA. | Pro-Apoptosis & Cell cycle negative regulator |
−1.75 | 0.0029 |
| GI_34147567-S | RAP1GDS 1 | RAP1; GTP-GDP dissociation stimulator 1 (RAP1GDS1); mRNA. |
Unknown | −1.64 | 0.0031 |
| GI_6466449-A | COMT | catechol-O-methyltransferase (COMT); transcript variant MB-COMT; mRNA. |
Cell metabolism | −1.53 | 0.0037 |
| GI_4505054-S | LYN | v-yes-1 Yamaguchi sarcoma viral related oncogene homolog (LYN); mRNA. |
Cell growth/ Maintenance |
−1.47 | 0.0035 |
| GI_38201662-A | ING1 | inhibitor of growth family; member 1 (ING1); transcript variant 4; mRNA. |
Cell cycle - anti-mitotic |
−1.43 | 0.0010 |
| GI_5174568-S | MLL | myeloid/lymphoid or mixed- lineage leukemia (trithorax homolog; Drosophila) (MLL); mRNA. |
Transcription factor |
−1.36 | 0.0030 |
| GI_4758605-S | ILK | integrin-linked kinase (ILK); mRNA. |
Cell-adhesion | −1.24 | 0.0008 |
| GI_19924130-A | RAD50 | RAD50 homolog (S. cerevisiae) (RAD50); transcript variant 1; mRNA. |
DNA repair | −1.10 | 0.0044 |
| GI_19924134-A | RAD51 | RAD51 homolog (RecA homolog; E. coli) (S. cerevisiae) (RAD51); transcript variant 1; mRNA. |
DNA repair | −1.03 | 0.0041 |
| GI_12669916-S | E2F5 | E2F transcription factor 5; p130-binding (E2F5); mRNA. |
Cell-Cycle; negative regulator |
−1.01 | 0.0048 |
| GI_18765747-A | COL18A1 | collagen; type XVIII; alpha 1 (COL18A1); transcript variant 1 ;mRNA. |
Cell adhesion; Cell Cycle- negative regulator |
−1.00 | 0.0046 |
| GI_33239450-A | PCNA | proliferating cell nuclear antigen (PCNA); transcript variant 2; mRNA. |
Cell cycle; pro- mitotic |
−0.96 | 0.0010 |
| GI_16936532-A | CDK4 | cyclin-dependent kinase 4 (CDK4); transcript variant 2; mRNA. |
Cell Cycle; pro- mitotic |
−0.87 | 0.0020 |
| GI_16933566-S | MEL | mel transforming oncogene (derived from cell line NK14)- RAB8 homolog (MEL); mRNA. |
Cell growth/ maintenance |
−0.79 | 0.0050 |
| GI_4504808-S | JUNB | jun B proto-oncogene (JUNB); mRNA. |
Transcription factor |
+1.09 | 0.0008 |
| GI_5803016-S | FOSB | FBJ murine osteosarcoma viral oncogene homolog B (FOSB); mRNA. |
Transcription factor |
+1.17 | 0.0049 |
| b. Anastrozole-treated cases (n = 11): dysregulated genes over time (core needle biopsy to surgery). Probes sorted by ascending fold change. Probe sets sorted by Log2Fold Change. | |||||
|---|---|---|---|---|---|
| Target ID | Symbol | Definition | Function | Log 2Fold Change |
p-value |
| GI_31981491-S | PR | Progesterone receptor (PR); mRNA. |
Transcription factor |
−1.70 | 0.0024 |
| GI_27894367-S | NOTCH1 | Notch homolog 1; translocation-associated (Drosophila) (NOTCH1); mRNA. |
Signal transduction; development |
−1.49 | 0.0007 |
| GI_17017983-S | CDK9 | Cyclin-dependent kinase 9 (CDC2-related kinase) (CDK9); mRNA. |
Cell cycle | −1.35 | 0.0015 |
| GI_4504610-S | IGF2R | Insulin-like growth factor 2 receptor (IGF2R); mRNA. |
Signal transduction |
−1.23 | 0.0045 |
| GI_5174568-S | MLL | Myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog; Drosophila) (MLL); mRNA. |
Transcription activating factor |
−1.17 | 0.0035 |
| GI_4885360-S | GRPR | Gastrin-releasing peptide receptor (GRPR); mRNA. |
Cell cycle | −1.16 | 0.0039 |
| GI_4557792-S | NF1 | Neurofibromin 1 (neurofibromatosis; von Recklinghausen disease; Watson disease) (NF1); mRNA. |
Cell cycle negative regulator & Cell growth |
−1.08 | 0.0049 |
| GI_4759335-S | FANCG | Fanconi anemia; complementation group G (FANCG); mRNA. |
DNA repair | −1.08 | 0.0016 |
| GI_4504938-S | LAF4 | Lymphoid nuclear protein related to AF4 (LAF4); mRNA. |
Transcription activating factor |
−0.94 | 0.0006 |
| GI_6633806-S | LMO2 | LIM domain only 2 (rhombotin-like 1) (LMO2); mRNA. |
Cell growth and maintenance |
−0.88 | 0.0039 |
| GI_6382057-A | ABL1 | v-abl Abelson murine leukemia viral oncogene homolog 1 (ABL1); transcript variant b; mRNA. |
Pro-apotosis, Cell cycle negative regulator, DNA repair |
−0.84 | 0.0016 |
| GI_4504938-S | LAF4 | Lymphoid nuclear protein related to AF4 (LAF4); mRNA. |
Transcription activating factor |
−0.69 | 0.0047 |
| GI_20127489-S | MADH2 | MAD; mothers against decapentaplegic homolog 2 (Drosophila) (MADH2); mRNA. |
Negative regulation of DNA transcription |
−0.66 | 0.0041 |
| GI_8400737-S | TP53 | Tumor protein p53 (Li- Fraumeni syndrome) (TP53); mRNA. |
Pro-apotosis, Cell cycle negative regulator, DNA repair |
−0.64 | 0.0012 |
| GI_20127459-S | XPC | Xeroderma pigmentosum; complementation group C (XPC); mRNA. |
DNA repair | −0.54 | 0.0022 |
| GI_4503122-S | CTGF | Connective tissue growth factor (CTGF); mRNA. |
Cell adhesion, cell differentiation, regulation cell growth |
+0.76 | 0.0034 |
| GI_4506264-S | PTGS2 | Prostaglandin-endoperoxide synthase 2 (prostaglandin G/H synthase and cyclooxygenase) (PTGS2); mRNA. |
Response to oxidative stress |
+1.26 | 0.0012 |
| GI_6552332-S | FOS | v-fos FBJ murine osteosarcoma viral oncogene homolog (FOS); mRNA. |
Cell growth & Inflammatory response |
+1.32 | 0.0009 |
| GI_5803016-S | FOSB | FBJ murine osteosarcoma viral oncogene homolog B (FOSB); mRNA. |
Cell cycle negative regulator |
+1.54 | 0.0009 |
| GI_6552332-S | FOS | v-fos FBJ murine osteosarcoma viral oncogene homolog (FOS); mRNA. |
Cell growth & Inflammatory response |
+1.67 | 0.0001 |
| GI_6552332-S | FOS | v-fos FBJ murine osteosarcoma viral oncogene homolog (FOS); mRNA. |
Cell growth & Inflammatory response |
+1.91 | 0.0002 |
| GI_10834983-S | IL6 | Interleukin 6 (interferon; beta 2) (IL6); mRNA. |
Acute phase response |
+2.15 | 0.0003 |
| GI_5803016-S | FOSB | FBJ murine osteosarcoma viral oncogene homolog B (FOSB); mRNA. |
Cell cycle negative regulator |
+2.37 | 0.0023 |