Table 4. Chromosomes 18, 20,7 and 8 loss and gain.
Cytoband | CRC Gene | Other Gene | G-score | Function |
18q22.3 | TSHZ1 | 2.658 | Encodes a colon cancer antigen, involved in transcriptional regulation | |
18q21 | DCC | 2.399 | Tumor suppressor gene in colon carcinogenesis | |
18q21.33 | BCL2 | 2.365 | Regulation of apoptosis | |
18q21.32 | MALT1 | 2.326 | Tumor Suppression. | |
18q21.31 | ATP8B1 | 2.326 | Aminophospholipid Transporter | |
18q21 | NARS | 2.326 | Asparaginyl-tRNA synthetase | |
18q21.1 | SMAD2 | 2.259 | Transcription factors and gene regulation | |
18q21.1 | ATP5A1 | 2.259 | Tumor suppressor, regulation of apoptosis | |
18q21 | SMAD7 | 2.259 | Transcription factors and gene regulation | |
18q21.2 | SMAD4 | 2.259 | Transcription factors and gene regulation | |
20q13.2 | BCAS1 | 5.323 | Oncogene, aggressive tumors. | |
20q13.31 | CTCFL | 4.836 | Gene regulation, oncogene in ovarian cancer | |
20q13.31 | SPO11 | 4.8360 | Gene binding, ATP binding | |
20q13.3 | GNAS | 4.781 | Oncogene | |
20q13 | AURKA | 4.722 | Oncogene, tumor development | |
20q13.1 | DPM1 | 4.662 | Transferase activity | |
20q13.2 | ZNF217 | 4.662 | Role in breast cancer | |
7p21 | PLEKHA8 | 2.018 | Intracellular trafficking | |
7p15.2 | HOXA3 | 2.000 | Transcription factor | |
7p15.3 | GPNMB | 2.000 | Role in metastasis | |
7p15.3 | IGF2BP3 | 2.000 | Binding protein | |
7p21 | IL6 | 2.00 | Tumor progression | |
7p15 | INHBA | 1.944 | Cell Signaling | |
8q24.21 | PCAT1 | 3.420 | Non-protein coding prostate cancer transcript |
Chromosome 18 has the steepest copy number loss (53.33%), chromosome 20 the maximum copy number gain (80%), chromosome 7 has a high gain (60%) and ranks second to chromosome 20 in terms of copy gain.
BCAS1 in chr20 has the highest G-score overall. Genes in CRC and in other cancers are identified based on the cytoband coordinates for the aberrated regions. Seven genes out of ten were involved in CRC and other three have role in various cancers in chromosome 18. G-scores indicate critical regions to drive cancer by accounting for the false discovery rate corrected significance of the frequency of gain and the average copy number for samples with gain at each probe position. TSHZ1 at the 18q22.3 shows highest G-Score value of 2.658 for observations on that chromosome with an associated copy number loss of 53.33%.