Effects of transcriptional noise on estimates of gene and transcript expression in RNA sequencing experiments

RNA sequencing is widely used to measure gene expression across a vast range of animal and plant tissues and conditions. Most studies of computational methods for gene expression analysis use simulated data to evaluate the accuracy of these methods. In this work we present a dataset of 3 tissues each containing 10 samples of simulated short RNA-seq reads across 4 types of transcription characterized from the GTEx dataset. For each type of transcription: 1) known isoforms; 2) splicing noise; 3) intronic noise; 4) intergenic noise - we sets of reads in CRAM format along with expression matrices and GTF annotations for downstream analysis. A copy of GRCh.38 used in our analysis is also provided allong with the simulated data. Further details on the structure of each file is provided in the accompanying README document.