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Chunk #10 — Methods — Quantitative measurement of male/female contribution

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Decitabine alters the expression of Mecp2 isoforms via dynamic DNA methylation at the Mecp2 regulatory elements in neural stem cells.
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Genomic DNA from neural stem cells at D0, D2, D8 and decitabine-treated cells were extracted using the DNeasy Blood and Tissue kit (Qiagen, Ontario, Toronto, Canada), as per manufacturer’s instructions. The contribution of male and female sexes were determined by semiquantitative PCR-based amplification of Sry (sex-determining region protein gene in the Y chromosome) and Il3 (autosomal gene as an internal control) genes, as described previously [38], using the primers listed in Table 1. The PCR program consisted of an initial denaturation at 95°C for 4.5 minutes, followed by 33 cycles of 95°C for 35 s, 50°C for 1 minute, 72°C for 1 minute, and a final extension step at 72°C for 5 minutes. The amplified products were run on 1.5% agarose gel and the bands were visualized by ethidium bromide staining. The Sry and Il3 PCR products were identified based on the corresponding sizes (Sry: 402 bp, and Il3: 544 bp). Intensity of the corresponding bands was quantified using Adobe Photoshop CS5 software. The contribution of either sex was further determined by quantitative reverse transcription PCR (qRT-PCR) for Xist (X-inactive