DNA Replication Stress Generates Distinctive landscapes of DNA copy number alterations and chromosome scale losses

Diploid human cell lines were treated with aphidicolin as a model to see how DNA replication stress affects the genome, by identifying which copy number alterations appear in the first cell cycle. RNAseq was used to see whether there is any link between loci with recurrent CNAs and gene transcription in the genes located there. RNAseq analysis was performed on the BJ and RPE-1 cell lines treated with Aphidicolin or DMSO control. Three replicates were analysed per condition.