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. 1999 Nov 12;65(6):1647–1655. doi: 10.1086/302677

Table 2.

Overview of Oligonucleotides Used for TAQman Assays Detecting Polymorphisms in TNF Genes[Note]

Polymorphismand Type ofProbe or Primer Oligonucleotidesa Concentration(nM) PCRConditions
TNF-β: NcoI:  Forward  Reverse  Probe 1  Probe 2 GGGCCTTGGTGGGTTTGGTTAAGGGGACAAGATGCAGTCAGAGAAFam-TCTGTTTCTGCCATGATTCCTCTCTGTTCC-TamraTet-CTGTTTCTGCCATGGTTCCTCTCTGTTCC-Tamra 900900200200 50 cycles at  65°C annealing and 1-min extension
 Asn26:  Forward  Reverse  Probe 1  Probe 2 CCCGTCAGCACCCCAAGATGTGGGAGGTCAGGTGGATGTTTACC Fam-TTGCCCACAGCACCCTCAAACCTG-TamraTet-TGCCCACAGCAACCTCAAACCTGC-Tamra 900900100100 40 cycles at 65°C annealing and 1-min extension
TNF-α: −308:  Forward  Reverse  Probe 1  Probe 2 CCTGCATCCTGTCTGGAAGTTAGAAGTGGGCCACTGACTGATTTGTGTGTFam-AACCCCGTCCCCATGCCCCTC-TamraTet-AACCCCGTCCTCATGCCCCTCAA-Tamra 1,0001,000100100 45 cycles at 70°C annealing and 1-min extension
 −244:  Forward  Reverse  Probe 1  Probe 2 CCTCCAGGGTCCTACACACAACAAGCATCAAGGATACCCCTCFam-CCCAGAAGACCCCCCTCAGAATC-TamraTet-CCAGAAGACCCCCCTCGGAATC-Tamra 900900100100 40 cycles at 60°C annealing and 30-s extension
 −238:  Forward  Reverse  Probe 1  Probe 2 CAGTGGCCCAGAAGACCCAGCATCAAGGATACCCCTCACFam-AATCGGAGCAGGGAGGATGGG-TamraTet-AATCAGAGCAGGGAGGATGGGGA-Tamra 900300100100 40 cycles at 60°C annealing and 30-s extension

Note.—The polymorphisms and their sequences were retrieved from the literature (Messer et al. 1991; Ferencik et al. 1992; Weissensteiner and Lanchbury 1997).

a

The polymorphic nucleotide is underlined.