Seminars, events & talks

Wednesday, 7th May, 2014, 11:00

Understanding alternative splicing by genome-wide, quantitative profiling

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

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