RNASeq analysis of embryonic day 13.5 mouse thalamus, prethalamus and anterior cortex from control and Pax6-deleted embryos

Mice carrying embryos that were either Pax6fl/fl;CAGGCreER (experimental group) or Pax6fl/+;CAGGCreER (control group) were given tamoxifen on embryonic day 9.5 (E9.5) to induce Pax6 deletion. Embryos were harvested on E13.5. The thalamus, prethalamus and cerebral cortices were dissected and total RNA was extracted. Samples of the same genotype were pooled. Poly-A mRNA was purified and TruSeq RNA-Seq libraries were prepared and sequenced (50 base paired-end for cortex samples; 125 base paired end for thalamus and prethalamus samples; Illumina, HiSeq v4).