Data from: RPASE: individual based allele-specific expression detection without prior knowledge of haplotype phase
Wang, Mi; Uebbing, Severin; Pawitan, Yudi; Scofield, Douglas G. (2018), Data from: RPASE: individual based allele-specific expression detection without prior knowledge of haplotype phase, Dryad, Dataset, https://doi.org/10.5061/dryad.qf0r2t9
Variation in gene expression is believed to make a significant contribution to phenotypic diversity and divergence. The analysis of allele-specific expression (ASE) can reveal important insights into gene expression regulation. We developed a novel method called RPASE (Read-backed Phasing-based ASE detection) to test for genes that show ASE. With mapped RNA-seq data from a single individual and a list of SNPs from the same individual as the only input, RPASE is capable of aggregating information across multiple dependent SNPs and producing individual-based gene-level tests for ASE. RPASE performs well in simulations and comparisons. We applied RPASE to multiple bird species and found a potentially rich landscape of ASE.