Table 1. Top 25 genes with elevated 3′ expression in individual CRCs.
| Gene symbol | Ensembl ID | Chromosome | Strand | Deviating sample | Expression Break score (EBS) | Type |
|---|---|---|---|---|---|---|
| ACY3 | ENSG00000132744 | 11 | −1 | Sample12_T | 2.60 | 5′ RACE candidate |
| ASPRV1 | ENSG00000244617 | 2 | −1 | Sample5_T | 4.00 | 5′ RACE candidate |
| BAAT | ENSG00000136881 | 9 | −1 | Sample13_T | 3.67 | 5′ RACE candidate |
| BPIFA2 | ENSG00000131050 | 20 | 1 | Sample16_T | 2.65 | 5′ RACE candidate |
| CA6 | ENSG00000131686 | 1 | 1 | Sample9_T | 4.16 | 5′ RACE candidate |
| COLGALT2 | ENSG00000198756 | 1 | −1 | Sample19_T | 4.67 | 5′ RACE candidate |
| FABP7 | ENSG00000164434 | 6 | 1 | Sample10_T | 5.67 | 5′ RACE candidate |
| FGF12 | ENSG00000114279 | 3 | −1 | Sample12_T | 3.37 | 5′ RACE candidate |
| GUCY1A2 | ENSG00000152402 | 11 | −1 | Sample1_T | 3.68 | 5′ RACE candidate |
| HOXC12 | ENSG00000123407 | 12 | 1 | Sample15_T | 4.61 | 5′ RACE candidate |
| IL11 | ENSG00000095752 | 19 | −1 | Sample20_T | 3.47 | 5′ RACE candidate |
| INA | ENSG00000148798 | 10 | 1 | Sample14_T | 5.73 | 5′ RACE candidate |
| KLK7 | ENSG00000169035 | 19 | −1 | Sample2_T | 3.91 | 5′ RACE candidate |
| KRT24 | ENSG00000167916 | 17 | −1 | Sample5_T | 3.45 | 5′ RACE candidate |
| LY6D | ENSG00000167656 | 8 | −1 | Sample5_T | 3.15 | 5′ RACE candidate |
| LYPD3 | ENSG00000124466 | 19 | −1 | Sample5_T | 5.06 | 5′ RACE candidate |
| MASP2 | ENSG00000009724 | 1 | −1 | Sample4_T | 3.25 | 5′ RACE candidate |
| MOGAT1 | ENSG00000124003 | 2 | 1 | Sample6_T | 2.29 | 5′ RACE candidate |
| MUC15 | ENSG00000169550 | 11 | −1 | Sample5_T | 3.81 | 5′ RACE candidate |
| NINJ2 | ENSG00000171840 | 12 | −1 | Sample8_T | 3.40 | 5′ RACE candidate |
| SOHLH2 | ENSG00000120669 | 13 | −1 | Sample3_T | 2.75 | 5′ RACE candidate |
| S100A2 | ENSG00000196754 | 1 | −1 | Sample5_T | 5.85 | 5′ RACE candidate |
| SLC22A2 | ENSG00000112499 | 6 | −1 | Sample17_T | 4.33 | 5′ RACE candidate |
| SLC38A11 | ENSG00000169507 | 2 | −1 | Sample19_T | 4.54 | 5′ RACE candidate |
| SNAP25 | ENSG00000132639 | 20 | 1 | Sample7_T | 3.08 | 5′ RACE candidate |
| RP11–57H14.3 | ENSG00000225292 | 10 | 1 | HCT116 | NA | Positive control |
| TCF7L2 | ENSG00000148737 | 10 | 1 | NCI-H508 | NA | Positive control |
| VNN1 | ENSG00000112299 | 6 | −1 | HT29 | NA | Positive control |
The top 25 genes with elevated 3′ expression, identified by analysis of exon microarray data, were selected for follow-up transcript characterization by 5′ RACE and sequencing. In addition to the 25 top-scoring genes, three genes with previously known transcriptional changes were included as positive controls.