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cDNA probes used in Southern blotting were amplified using a MaPIP1 1 primer set: F- 5′ATGTGTAATCCCAGCAGC and R- 5′CAAGGAGGACGGAAACAT.
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The probes for Southern and Northern blot were amplified using PCR with gene-specific primers listed in Additional file 1: Table S1.
Asx exons were amplified using genomic PCR.
PCR products were amplified using AmpliTaqGold360Mastermix Applied Biosystemss).
Target genes were amplified using specific primers.
After elution, IPs were amplified using PCR.
Promoters were amplified using PCR incorporating Onc.
For bisulphite-sequencing analysis, bisulphite-treated genomic DNA of the GBM cell lines AMC 3344, VU-28, VU110, Hs 683, U251 and the astrocytoma grade III cell line D384 (selected on the basis of the results of western blot and MS-MLPA) was amplified using primers listed in Table 1.
HPV DNA was amplified using the consensus primers PGMY09 and PGMY11, and reverse line-blot hybridization was used to detect type-specific amplicons for 37 HPV types.
Southern blotting analysis of transgenic Arabidopsis plants was conducted using the 3′ 407-bp sequence of the full-length cDNA, which was amplified using GbRLK3-F/R primers (Additional file 1: Table S1), as a probe.
Env was amplified using a nested PCR.
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