Workflow for exon-level analysis. Workflow proposed for the detection of ASEs. a) The number of probe sets to be considered for the analysis is reduced on the basis of ENSEMBL isoform knowledge (multiple RNAs filter). Eventually, a filter based on the quality of the intensity signal (DABG filter) might be considered as an additional filter. b-c) Statistical analysis is done using a model based algorithm (MiDAS) and a non-parametric algorithm (RP). d) Intersection of data derived by the two statistical analyses, using a common arbitrary p-value threshold (e.g. 0.05), is used to reduce the number of FPs.