Mus musculus domesticus
The aim of this study was to identify target genes regulated by the POU4F2 also called Brn 3b transcription factor in controlling vascular integrity and function. This was achieved using RNA sequencing to analyse for genes that were differentially regulated in the aorta of Brn 3b KO mouse mutants in which the Brn-3b gene was constitutively deleted when compared with aged matched littermate controls. For these studies, highly purified mRNA extracted from 3 Brn-3b KO aortas and wild-type littermate controls were used for RNA-dependent cDNA synthesis and first strand library preparation, prior to sequencing on the Illumina NextSeq 500 instrument (, San Diego, US) using paired end run. De-multiplexed data was converted to Fastq files using Illumina bcl2fastq Conversion Software v2.19, aligned with the reference genome using STAR (v2.5b), deduplicated using Picard Tools v2.7.1) and transcript reads were counted by FeatureCounts (v1.4.6p5). Ensembl ID for each gene was determined using gProfiler and this data was then used for normalisation, modelling and differential expression analysis using the iDEP.93 software platform, which connects multiple R/Bioconductor packages with annotation and pathway databases to provide comprehensive analysis of RNA sequencing data. Principal component analysis identified one outlier WT sample, which was taken into consideration in subsequent analyses as explained in the publication.
strain
Brn-3b KO
isolate
aorta
breed
C57BL
age
2-4 months
dev_stage
adult
collection_date
2017/2022
geo_loc_name
United Kingdom
sex
male
tissue
aorta
Brn-3b knockout
Mutants
BioSampleModel
Model organism or animal