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A. Genomic DNA. Restriction endonuclease digestion. Fragmented genome. Hybridization with biotinylated probe targeting EGFR exon 20. EGFR exon 20 ssDNA isolated by Streptavidin Magnetic Beads. PNA-enriched TaqMan real-time PCR to detect T790M mutation. B. B.
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A Genomic DNA Restriction endonuclease digestion Fragmented genome Hybridization with biotinylated probe targeting EGFR exon 20 EGFR exon 20 ssDNA isolated by Streptavidin Magnetic Beads PNA-enriched TaqMan real-time PCR to detect T790M mutation B B TaqMan probe targeting T790M Forward primer X LNA Biotinylated probe PNA clamp inhibiting wt 3’ RsaI RsaI 5’ Minus strand Reverse primer Supplementary Fig. 1. Outline of PNA-clamp-based TaqMan real-time PCR detection of T790M using isolated EGFR exon 20 targets. (A) RsaI-digested genomic DNA is hybridized with biotinylated EGFR exon 20 probe, followed by magnetic beads purification of EGFR exon 20 single strand DNA. A real-time PCR with PNA clamp probe that inhibits the amplification of wild-type DNA and a TaqMan probe with a centrally located locked-nucleic acid nucleotide matching the mutation is used for real-time detection of T790M mutation from the purified single strand DNA of EGFR exon 20. (B) Schema for the design of probe and primers. Supplementary Fig.1