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Chunk #11 — Materials and methods — Analysis of allele specific expression difference

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A promoter polymorphism in the Per3 gene is associated with alcohol and stress response.
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phosphatase (CIP, New England BioLabs, Beverly, MA, USA) and separated by capillary electrophoresis on ABI3130 (Applied Biosystems, Foster City, CA, USA). Quantification was done using GeneMapper v4.0 software (Applied Biosystems), and transcript abundance was measured by peak intensities associated with each allele. Ratios of B and D allele expression in both cDNA and genomic DNA pools were computed, and a t-test was done to validate expression differences and polarity of parental alleles.