Alcohol-specific transcriptional dynamics of memory reconsolidation

To assess gene expression underlying alcohol memory in different regions of the brain, we performed total RNA-sequencing (RNA-seq) on brain tissue (prefrontal cortex or dorsal hippocampus) from C57BL/6 adult mice that had undergone alcohol placement conditioning and either placed back into alcohol context (retrieval, Ret) or briefly handled as a control (no retrieval, NoRet) Overall design: 2-3 biological replicates, each consisting of prefrontal cortex or dorsal hippocampi from individual mice. Pooled stranded libraries were run on Illumina Hiseq 2000, single-end, 50 bp reads. Data was processed by Bowtie2, Tophat2, featurecounts, and DESeq2 to assess differential gene expression.