Table 2.
PCR primers for analysis of the methylation status of (A) ABCA1, (B) ACSL1 and (C) ACYP1 gene promoters. All positions are relative to the entire input sequences
| (A) ABCA1 | ||||||
|---|---|---|---|---|---|---|
| amplicon |
primer |
|||||
| start | end | length | CpGs | left | right | |
| forward direction | ||||||
| ABCA1_amp01 | 50 | 506 | 457 | 8 | GGTTTTTGGAAGGTAGAGATTTTTT | CCCTAACCCTAACCTACTAACCTTC |
| ABCA1_amp02 | 482 | 1101 | 620 | 40 | GAAGGTTAGTAGGTTAGGGTTAGGG | CCCTATACTATTTACATCCCCAAAAA |
| ABCA1_amp03 | 1076 | 1515 | 440 | 21 | TTTTTGGGGATGTAAATAGTATAGGG | CCCAAAAAACTCAAACAACAATAAC |
| ABCA1_amp04 | 1424 | 1967 | 544 | 22 | GATTGGGATTGTATGTTTTTGTTTT | CACCAATTTTAACCAAATTCACAAT |
| reverse direction | ||||||
| ABCA1_amp05 | 115 | 516 | 402 | 8 | TTTTTTGTAGTTTTGGTTTTGATTTG | AAACTAATATTCACTATCCATTCCACA |
| ABCA1_amp06 | 491 | 891 | 401 | 36 | GGGGGAAATAGGGAGTAGAGTAGTT | CAAATCAAAACCAAAACTACAAAAA |
| ABCA1_amp07 | 865 | 1367 | 503 | 23 | AGGATTTAGATGTGATATTTGTGGG | AAAACTACTCTACTCCCTATTTCCCC |
| ABCA1_amp08 | 1343 | 1669 | 327 | 7 | AGGGTGGATTGGGTATTTTAGTTT | CCCACAAATATCACATCTAAATCCT |
| ABCA1_amp09 | 1646 | 2084 | 439 | 17 | GGTTTGGGAGTTAGGAAATAAATAAA | AAACTAAAATACCCAATCCACCCT |
| (B) ACSL1 | ||||||
|---|---|---|---|---|---|---|
| amplicon |
primer |
|||||
| start | end | length | CpGs | left | right | |
| forward direction | ||||||
| ACSL1_amp01 | 27 | 390 | 364 | 13 | AGGATGGAAGAGTTAAAGGGTATTT | TATCTAAACTAATCCAAACCCCTCA |
| ACSL1_amp02 | 366 | 1078 | 713 | 78 | TGAGGGGTTTGGATTAGTTTAGATA | CAAAATCCCCAACAAACAAAA |
| ACSL1_amp03 | 1049 | 1278 | 230 | 22 | GAGAGGTGGTTTTGTTTGTTGG | TCTAAAAACTCCTCTTAAAAACACC |
| reverse direction | ||||||
| ACSL1_amp04 | 87 | 387 | 301 | 13 | TTGGGTTGATTTAAGTTTTTTAGATT | AAAACTTCCAAATTTACCCTTTACC |
| ACSL1_amp05 | 364 | 1077 | 714 | 78 | AGGGTTTTTAGTAAGTAGGATTATTTTT | TCTAAAAAACTTAAATCAACCCAAA |
| ACSL1_amp06 | 1050 | 1290 | 241 | 22 | GTGTGTAGTGGTTTTGGGAGTTT | AAAAATAATCCTACTTACTAAAAACCCT |
| (C) ACYP1 | ||||||
|---|---|---|---|---|---|---|
| amplicon |
primer |
|||||
| start | end | length | CpGs | left | right | |
| Region 01 | ||||||
| forward direction | ||||||
| ACYP1_amp01 | 142 | 729 | 588 | 29 | GAGAGGGGGTGATAGATATTTGAG | AATATAACCCCAAAAAAACCTCTCC |
| ACYP1_amp02 | 767 | 945 | 179 | 7 | AGATTTTAGGGTGTGTTTTTGTTTG | CCTAAAACTCTTACATAACCCTACCT |
| reverse direction | ||||||
| ACYP1_amp03 | 76 | 355 | 280 | 12 | TGGGGATTTTTTTTGAGTTGGAG | TCAAACCCTCATACAAAAATACTCTAT |
| ACYP1_amp04 | 344 | 943 | 600 | 26 | TGGAGTTTTTATATAGTTTTATTTGGGG | AAAAAATCCCCAAAACCTAATTTTC |
| Region 02 | ||||||
| forward direction | ||||||
| ACYP1_amp05 | 11 | 394 | 384 | 16 | TTTTAGGTATTTAGTAGGGTGAGTGGA | ATTTCTAAAACTTCCCCAAAAACC |
| ACYP1_amp06 | 195 | 599 | 405 | 26 | ATTTGTTTTGAAGTTTTATTTTTGGG | CTCCAATACCATAAAAACCTCTCC |
| reverse direction | ||||||
| ACYP1_amp07 | 1 | 601 | 601 | 29 | TTTTTTAATATTATGGGGGTTTTTT | ATACTAACAACCCTAAACACCCAA |