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We are interested in the comparison of transcript boundaries from cells whichoriginated in different environments. The goal is to assess whether thisphenomenon, called differential splicing, is used to modify the transcriptionof the genome in response to stress factors. We address this question bycomparing the change-points locations in the individual segmentation of eachprofile, which correspond to the RNA-Seq data for a gene in one growthcondition. This requires the ability to evaluate the uncertainty of thechange-point positions, and the work of Rigaill et. al. (2011) provides anappropriate framework in such case. Building on their approach, we propose twomethods for the comparison of change-points, and illustrate our results on adataset from the yeast specie. We show that the UTR boundaries are subject todifferential splicing, while the intron boundaries are conserved in allprofiles. Our approach is implemented in an R package called EBS which isavailable on the CRAN.

Comparing change-point locations of independent profiles with application to gene annotation