Table 6.
Most frequently selected genes for the BRN dataset.
| Rank | Annotation | Remarks | Group |
| 1 | TYR tyrosinase (oculocutaneous albinism IA) | Identified as marker for skin tumor class in [12] | M |
| 2 | FLJ20624 **hypothetical protein FLJ20624 | Related to the gene PAK1, which is associated with pancreatic cancer [35] | 1 |
| 3 | DMXL1 Dmx-like 1 | Function still unknown, although high level of conservation suggests important roles [36] | 4 |
| 4 | CLDN4 claudin 4 | Identified as marker for ovarian, bladder, lung, and stomach tumor classes in [12] | M |
| 5 | TACSTD1 tumor-associated calcium signal transducer 1 | Identified as marker for stomach, pancreatic, lung, and breast cancer classes in [12] | M |
| 6 | M6PR mannose-6-phosphate receptor (cation dependent) | Defective function of M6PR leads to hepatocellular carcinoma [37] | 1 |
| 7 | PLG plasminogen | Identified as marker for stomach cancer class in [12] | M |
| 8 | SPINT2 serine protease inhibitor, Kunitz type, 2 | Found to be under-expressed in epithelial ovarian cancer patients [38] | 1 |
| 9 | SORD sorbitol dehydrogenase | Suppresses growth arrest induced by a p53 tumor mutant in fission yeast [39] | 2 |
| 10 | FGA fibrinogen, A alpha polypeptide | Mutation of FGA found in breast cancer patients [40] | 1 |
| 11 | BCL6 B-cell CLL/lymphoma 6 (zinc finger protein 51) | Deregulation of BCL6 found in diffuse large cell lymphoma [41] | 1 |
| 12 | APOH apolipoprotein H (beta-2-glycoprotein I) | Identified as marker for liver cancer class in [12] | M |
| 13 | PAX8 paired box gene 8 | Verified as marker for ovarian cancer in [12], also identified as marker for renal and breast cancer classes in [12] | M |
| 14 | APCS amyloid P component, serum | Produces normal circulating plasma protein that is deposited on amyloid fibrils | 4 |
| 15 | S100A1 S100 calcium-binding protein A1 | Identified as marker for breast, kidney, and ovary cancer classes in [12] | M |
| 16 | AMD1 S-adenosylmethionine decarboxylase 1 | Specifically up-regulated in B cell lymphoma [42] | 1 |
| 17 | FABP1 fatty acid binding protein 1, liver | Identified as marker for pancreatic cancer class in [12] | M |
| 18 | HLCS holocarboxylase synthetase (biotin- [proprionyl-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase) | The enzyme holocarboxylase synthetase plays a role in gene regulation (determining whether genes are turned on or off) | 4 |
| 19 | ITIH3 pre-alpha (globulin) inhibitor, H3 polypeptide | Its product is predominantly transcribed in liver, and is involved in pathological conditions such as tumor invasion and metastasis [43] | 2 |
| 20 | KRT18 keratin 18 | Identified as marker for CNS (central nervous system) and stomach cancer classes in [12] | M |
| 21 | LGALS4 lectin, galactoside-binding, soluble, 4 (galectin 4) | Verified as marker for pancreatic cancer in [12], also identified as marker for stomach, liver, kidney, and breast cancer classes in [12] | M |
| 22 | HELO1 homolog of yeast long chain polyunsaturated fatty acid elongation enzyme 2 | Highly expressed in adrenal gland and testis (tissue-specific), probably involved in encoding the major histocompatibility complex, essential to human immune response [44] | 3 |
| 23 | EST | Unknown sequence | 4 |
| 24 | QKI homolog of mouse quaking QKI (KH domain RNA binding protein) | Specifically expressed in the central nervous system (CNS) | 3 |
| 25 | NDP Norrie disease (pseudoglioma) | Regulates neural cell proliferation and differentiation. Norrie disease (caused by mutation of NDP) is also accompanied by intraocular tumor [45] | 3 |
Top 25 genes ranked from the most frequently selected genes for the BRN dataset. Group M: identified as a marker or repressor of a specific tumor type in originating study. Group 1: identified as a marker or repressor of a specific tumor type in other studies. Group 2: known to either promote or inhibit tumor in general. Group 3: tissue-specific genes. Group 4: unknown sequences and genes with either still-unidentified function or general housekeeping roles.