Table 2.
Characterization of CpG islands (CGIs) of significantly deregulated ABC transporter genes. CGI locations are provided relative to transcription start site (TSS). Gene expression changes were identified in comparisons: Gleason score 7 versus 6 (G7/6); tumor stage 3 versus 2 (pT3/2); prostate cancer versus noncancerous prostate tissue (PCa/NPT); TMPRSS2-ERG fusion transcript negative versus positive cases (F−/+)
| Gene name | Gene expression | Group comparison | Gene location | CGI presence | GC content, % | CGI length, bp | CGI location according to TSS |
|---|---|---|---|---|---|---|---|
| ABCA2 | Up | G7/6 | 9q34 | Yes | 78 | 1196 | +134/+1329 |
| ABCA4 | Up | G7/6 | 1p22 | No | – | – | – |
| ABCA5 | Down | pT3/2 | 17q24.3 | Yes | 67 | 1319 | −669/+650 |
| ABCA6 | Down | pT3/2 | 17q24.3 | No | − | − | − |
| ABCA8 | Down | PCa/NPT; F−/+ | 17q24 | No | − | − | − |
| ABCA10 | Down | pT3/2 | 17q24 | No | − | − | − |
| ABCA11 | Down | BCR+/−; pT3/2 | 4p16.3 | Yes | 63 | 724 | −10/+714 |
| ABCA13 | Down | pT3/2; F−/+ | 7p12.3 | Yesa | 62 | 618 | +283291/+283908 |
| ABCB1 | Down | PCa/NPT; F−/+; pT3/2 | 7q21.12 | Yes | 57 | 1048 | +112174/+113221 |
| ABCC4 | Up | PCa/NPT | 13q32 | Yes | 68 | 1355 | −849/+506 |
| ABCC6 | Down | PCa/NPT | 16p13.1 | Yesa | 58 | 1397 | −1022/+375 |
| ABCC9 | Down | PCa/NPT; F−/+ | 12p12.1 | Yes | 56 | 1019 | −733/+286 |
| ABCC10 | Down | PCa/NPT | 6p21.1 | Yes | 59 | 964 | −454/+510 |
| ABCD2 | Down | PCa/NPT | 12q12 | No | − | − | − |
| ABCF1 | Down | F−/+ | 6p21.33 | Yes | 58 | 1222 | −655/+567 |
| ABCF3 | Up | G7/6 | 3q27.1 | Yes | 62 | 737 | −269/+468 |
| ABCG1 | Up | PCa/NPT | 21q22.3 | Yes | 67 | 1709 | −437/+1272 |
| ABCG2 | Down | PCa/NPT | 4q22 | Yes | 65 | 1053 | −589/+464 |
| ABCG4 | Down | PCa/NPT | 11q23.3 | Yes | 73 | 888 | −262/+626 |
aPredicted CGI