RNA sequencing of cortical neurons from Kat6b deficient mouse foetuses
The RNA sequencing data are part of a study reporting and investigating a mouse model of the Say-Barber-Biesecker-Young-Simpson (SBBYS) syndrome (OMIM:603736) and demonstrating proof-of-principle efficacy of postnatal treatment with sodium valproate (VPA) or acetyl-carnitine (ALCAR). The KAT6B gene encodes a histone lysine acetyltransferase. The RNA sequencing experiments identified genes that are differentially  expressed between Vehicle treated Kat6b+/– and Kat6b+/+ cortical neurons and the subset genes that are restored to normal expression after treatment with ALCAR or VPA. Cortical neurons were isolated from four Kat6b+/– and four Kat6b+/+ E16.5 mouse cerebral cortex. Cells from each cortical neuron isolate were cultured with 1 mM ALCAR, 1 mM VPA or untreated medium (Vehicle) for 4 days. Overall design: There were n=4 mice of each genotype, Kat6b+/–  (Dec/+) or Kat6b+/+ (wild type - WT). Neurons from each mice were subject to three treatments (ALCAR, VPA or vehicle). Each RNA library sample was sequenced twice (as identified by the date, 300823 or 080923 on the data files) to increase sequencing depth. These are pure technical replicates and were combined in the analysis. Differential analyses were performed indepently for the ALCAR/Vehicle and VPA/Vehicle sample groups, identifying differentially expressed genes between the various treatment/genotype group combinations.