Wednesday, 7th May, 2014, 11:00
Both chromatin state and binding of splicing factors to regulatory sequence elements of pre-mRNA have been shown to affect alternative splicing outcomes. Yet the precise interplay between these two determinants is not known. The availability of a relatively large number of relevant, publicly available, high-throughput ChIP-seq, CLIP-seq, and RNA-seq datasets make it possible to study this in depth on a genome-wide scale. Read profiling is a commonly used method to increase the signal strength of high-throughput data by combining reads from a set of similar loci rather than examining each locus individually, thus increasing the signal and statistical power. However, profiles often convey only qualitative information, In this talk I will present a method we have developed to calculate exact P-values for comparison of a profile with a proper control. The method allows for single-nucleotide resolution in principle, and can be used on most types of high-throughput sequenceing data. I will also show how we have applied the method thus far to study the relationship between chromatin and splicing factors.
Speaker: Isaac J. Kremsky Computational Genomics group, GRIB
Room Aula