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Portions of the SYN2 gene were amplified by polymerase chain reaction (PCR) and analyzed by direct sequencing on an automatic sequencer (ABI3730; Applied Biosystems).
The identity of the PCR product was confirmed by direct sequencing on the ABI 3700 sequencer.
The identity and correct orientation of the pcDNA3.1 L1-GHR8-L2 insert were assessed by direct sequencing on the ABI 3700 sequencer.
The entire coding sequences and intron-exon boundaries of the BRCA1 and BRCA2 genes were screened by denaturing high-performance liquid chromatography (DHPLC) followed by direct sequencing on an automated DNA sequencer (ABI Prism 3100 Genetic Analyzer, Applied Biosystems, Foster City, USA).
This was amplified by RT-PCR using primers T7L1 and L2A and products analysed by direct sequencing on the ABI 3700 DNA sequencer.
The orientation of ligated inserts with respect to Sp6 and T7 promoters was determined by direct sequencing on an ABI 3100 capillary sequencer using the BigDye terminator reaction chemistry (Applied Biosystems, Darmstadt, Germany).
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The nucleotide sequences of eTIP clones were determined by direct sequencing of the amplified fragments on the DNA sequencer 310 according to standard methods (Applied Biosystems).
We confirmed these data by direct sequencing of real-time PCR on mRNA derived from fibroblasts of patients KB186, KB153, KB3, showing that NMD inhibition restores the expression of the KMT2D-mutated alleles (Supp. Fig. S3E G).
Genotyping confirmation was carried out on 35 samples by direct sequencing of the 448 bp amplified fragments (models ABI-310 and ABI-3100 automateDNANA sequencers, Applied Biosystems, Foster City, California) (figure 1).
Deleted sequences were confirmed by direct sequencing of gel-purified PCR products (Supplementary Information tab 5).
SNP genotyping was performed by direct sequencing of purified PCR products and DNA sequencing, or by TaqMan analysis57.
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