Differential gene expression between wild type and Pax9-null pharyngeal arch tissue

The aim of this study was to identify differentially expressed genes within the pharyngeal arches of Pax9-null embryos at E9.5. Mice null for Pax9 die in the neonatal period with complex cardiovascular defects, caused by abnormal morphogenesis of the pharyngeal arch arteries. Total RNA was isolated from dissected pharyngeal arch region of E9.5 mouse embryos. Pax9-null pharyngeal arches were compared to stage-matched wild type controls. Three biological replicates for each group (wild type vs. mutant) were collected. Samples represent a mix of female and male animals. Isolated RNA was subjected to high throughput sequencing analyses to identify differentially expressed transcripts.