Table 3 Pyrosequencing and qPCR primer sets
From: Impact of ZBTB7A hypomethylation and expression patterns on treatment response to hydroxyurea
Gene | CpG islands | Sequence | Primers |
|---|---|---|---|
BCL11A | CpG 120 | 5′ GTTGTTTTGGAGTGGGAG 3′ | Forward |
5′ CAAATTAAAAACTAAACCTCCAAATTAC 3′ | Reverse 5′-biotin labeled | ||
5′ TTTTTTTTTTGAGATTTTTAGGAGT 3′ | Forward/Pyrosequencing | ||
5′ATTACTCCCCAACACCCTCCT 3′ | Reverse 5′-biotin labeled | ||
5′ TTTTATTTTTTTTAGTTAGTTG 3′ | Pyrosequencing | ||
CpG 115 | 5′ GTTAGTTTGGGAGGGGGTGA 3′ | Forward | |
5′ AAACCAAATACAAACTTACCATATCC 3′ | Reverse 5′-biotin labeled | ||
5′ GTTATGTGGGTTGAATG 3′ | Pyrosequencing | ||
KLF1 | CpG 98 | 5′ GGTTAGGGGTTGGTGGTTGG 3′ | Forward |
5′ AACCCCCCCCCCTCACCTATA 3′ | Reverse 5′-biotin labeled | ||
5′ TGGGTTTAGTTTTGGTTTTA 3′ | Pyrosequencing | ||
5′ GAGGATTTAGGTGTGA 3′ | Pyrosequencing | ||
MYB | CpG 216 | 5′ GATAGTGAGTGGGAGTTGGAGGA 3′ | Forward |
5′ CCATCAAACAAAAAACTTTAAACACT 3′ | Reverse 5′-biotin labeled | ||
5′ GGAGGAGAGAGAGTAGAATGGGAG 3′ | Pyrosequencing | ||
5′ GGTTTGTTTAGGAAAAGG 3′ | Pyrosequencing | ||
SIN3A | CpG 401 | 5′ AGGGGGTGGTTTGAAAGG 3′ | Forward |
5′ ATATCATCCAATCCACATCCAAAA 3′ | Reverse 5′-biotin labeled | ||
5′ GGGAAAAGGAAATGTATTAG 3′ | Pyrosequencing | ||
ZBTB7A | CpG 326 | 5′ GTAGATTTTTTTGTGTTAAGGA 3′ | Forward |
5′ AACAAACCCCCAACCTCTAC 3′ | Reverse 5′-biotin labeled | ||
5′ GGGATTTTTATAGTTTTATTTTTAA 3′ | Pyrosequencing | ||
5′ GGGTTTTGGTTGTATTGTATAGTTAT 3′ | Forward | ||
5′ CTCATACACTTAACCCCCAAT 3′ | Reverse 5′-biotin labeled | ||
5′ GAGGGAGAGATTAGGGTA 3′ | Pyrosequencing | ||
GATA2 | CpG 515 | 5′ ATTGTTAGGGAGGTTTAGAGTAT 3′ | Forward |
5′ ACTCTCAAACCCCAAACTT 3′ | Reverse 5′-biotin labeled | ||
5′ GAGAGAGTAGGGAGGGGGT 3′ | Pyrosequencing | ||
MAP3K5 | CpG 172 | 5′ GTGGTGGAGAGGGAGAGAGTTTGTAAG 3′ | Forward |
5′ CTAACCAACCACAACTCCAAACTACTCC 3′ | Reverse 5′-biotin labeled | ||
5′ GTTTTTTTTGGTTTTTTTTAGA 3′ | Pyrosequencing | ||
qPCR primer sets | |||
HBG | – | 5′-GAC AAG CTG CAT GTG GAT CCT-3′ | Forward |
5′-CCG AAA TGG ATT GCC AAA AC-3′ | Reverse | ||
ZBTB7A | – | 5′-CAT CTG CGA GAA GGT CAT CC-3′ | Forward |
5′-TGT CCT GCC TGG TGA AGC-3′ | Reverse | ||
GAPDH | – | 5′-CCA TGT TCG TCA TGG GTG TGA-3′ | Forward |
5′CAT GGA CTG TGG TCA TGA GT-3′ | Reverse | ||