Table 4.
In silico verified candidate TAAs.
| Gene symbol | Description/official full name | Location | Affymetrix probe ID | Score |
|---|---|---|---|---|
| ALG8 | Alpha-1,3-glucosyltransferase | 11q14.1 | 203545_at | 3.69 |
| ARPC5L | Actin-related protein 2/3 complex, subunit 5 like | 9q33.3 | 226914_at | 3.96 |
| AZIN1 | Antizyme inhibitor 1 | 8q22.3 | 212461_at | 3.28 |
| CBX2 | Chromobox 2 | 17q25.3 | 226473_at | 5.65 |
| CENPN | Centromere protein N | 16q23.2 | 222118_at | 3.12 |
| COL8A1 | Collagen type VIII alpha 1 chain | 3q12.1 | 226237_at | 10.44 |
| DCAF10 | DDB1 and CUL4-associated factor 10 | 9p13.2 | 230679_at | 8.75 |
| 226511_at | 3.84 | |||
| EIF3H | Eukaryotic translation initiation factor 3 subunit H | 8q23.3-q24.11 | 230570_at | 6.87 |
| ERBB2 | erb-b2 receptor tyrosine kinase 2 | 17q12 | 234354_x_at | 11.70 |
| 216836_s_at | 3.95 | |||
| HIST1H4H | Histone cluster 1 H4 family member h | 6p22.2 | 232035_at | 11.26 |
| 208180_s_at | 7.57 | |||
| IGFBP5 | Insulin-like growth factor binding protein 5 | 2q35 | 1555997_s_at | 3.52 |
| INTS7 | Integrator complex subunit 7 | 1q32.3 | 218783_at | 4.30 |
| KRT19 | Keratin 19 | 17q21.2 | 228491_at | 9.24 |
| KRT81 | Keratin 81 | 12q13.13 | 213711_at | 6.76 |
| MGAT4A | Mannosyl (alpha-1,3-)-glycoprotein beta-1,4-N-acetylglucosaminyltransferase, isozyme A | 2q11.2 | 231283_at | 5.85 |
| 226039_at | 3.62 | |||
| 219797_at | 3.51 | |||
| MIEN1 | Migration and invasion enhancer 1 | 17q12 | 224447_s_at | 6.40 |
| MTHFD2 | Methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase | 2p13.1 | 201761_at | 3.01 |
| PAK1 | p21 (RAC1)-activated kinase 1 | 11q13.5-q14.1 | 230100_x_at | 3.18 |
| PDCD6 | Programmed cell death 6 | 5p15.33 | 222380_s_at | 3.13 |
| PDRG1 | p53 and DNA damage regulated 1 | 20q11.21 | 225075_at | 3.52 |
| PGAP3 | Post-GPI attachment to proteins 3 | 17q12 | 221811_at | 5.92 |
| 55616_at | 5.14 | |||
| PIGK | Phosphatidylinositol glycan anchor biosynthesis class K | 1p31.1 | 209707_at | 3.03 |
| RFC5 | Replication factor C subunit 5 | 12q24.23 | 203209_at | 3.58 |
| RSF1 | Remodeling and spacing factor 1 | 11q14.1 | 222541_at | 8.91 |
| 229885_at | 4.33 | |||
| SHB | SH2 domain containing adaptor protein B | 9p13.1 | 1557458_s_at | 4.11 |
| SLC35A2 | Solute carrier family 35 member A2 | Xp11.23 | 209326_at | 5.47 |
| STARD3 | StAR-related lipid transfer domain containing 3 | 17q12 | 202991_at | 3.50 |
| SYNE4 | Spectrin repeat containing nuclear envelope family member 4 | 19q13.12 | 235515_at | 4.00 |
| TNPO1 | Transportin 1 | 5q13.2 | 1557278_s_at | 3.71 |
| 225765_at | 3.34 | |||
| UBR5 | Ubiquitin protein ligase E3 component n-recognin 5 | 8q22.3 | 208882_s_at | 3.09 |
| XPOT | Exportin for tRNA | 12q14.2 | 212160_at | 3.00 |
Genes retained after high-stringency filtration, i.e., genes “verified” on breast cancer and nonmalignant tissue data sets. “Score” refers to the quotient of the 95th percentile of the quantile-normalized breast cancer samples in GSE2943 and the 95th percentile of the quantile-normalized and grouped normal tissues in GEO DataSet GSE7307, whereby the maximum expression value across all samples per group was assigned to the group. An arbitrary score of 3.00 was selected as cutoff for the genes listed. The sample IDs of the different groups of normal tissues are shown in Data Sheet S1 in Supplementary Material. Gene symbols refer to the NCBI designations and HUGO Gene Nomenclature Committee (HGNC) recommendations. Official gene symbols, descriptions/official full names, and locations are indicated as shown on the respective NCBI Gene sites. 17q12, the location of ERBB2, MIEN1, PGAP3, and STARD3, is marked in bold face to emphasize proximity.