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Chunk #10 — 2. Method — 2.2. Brain dissections

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Gene expression changes in the nucleus accumbens of alcohol-preferring rats following chronic ethanol consumption.
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2-mm section generated by a coronal cut at 2 mm anterior to the optic chiasm (Bregma 1.70 mm) and a coronal cut at the optic chiasm (Bregma −0.26 mm). Dissected tissue was immediately homogenized in Trizol reagent (Invitrogen, Carlsbad, CA) and processed according to the manufacturer's protocol, but with twice the suggested ratio of Trizol to tissue, as discussed previously (Edenberg et al., 2005). Ethanol precipitated RNA was further purified through RNeasy® columns (Qiagen, Valencia, CA), according to the manufacturer's protocol. The yield, concentration and purity of the RNA were determined by running a spectrum from 210 to 350 nm, and analyzing the ratio of large and small ribosomal RNA bands using an Agilent Bioanalyzer. Yields and purity of the RNA were deemed excellent.