Validation of Human Alternative Splice Forms Using the EASED Platform and Multiple Splice Site Discriminating Features

  • Ralf Bortfeldt
  • Alexander Herrmann
  • Heike Pospisil
  • Stefan Schuster
Part of the Modeling and Simulation in Science, Engineering and Technology book series (MSSET)

Summary

We have shown for a dataset of computationally predicted alternative splice sites how inherent information can be utilized to validate the predictions by applying statistics on different features typical for splice sites. As a promising splice site feature we investigated the frequencies of binding motifs in the context of exonic and intronic splice site flanks and between the alternative and reference splice sites. We show that both partitions of splice sites can statistically be separated not only by their distance to the splice signal consensus but also via frequencies of splice regulatory protein (SRp) binding motifs in the splice site environment.

Key words

Splicing alternative splicing SR proteins splicing enhancer 

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Copyright information

© springer 2007

Authors and Affiliations

  • Ralf Bortfeldt
    • 1
    • 2
  • Alexander Herrmann
    • 2
  • Heike Pospisil
    • 3
  • Stefan Schuster
    • 1
  1. 1.Dept. of BioinformaticsFriedrich-Schiller University JenaD-07743 JenaGermany
  2. 2.Dept. of BioinformaticsMax-Delbrck Center for Molecular MedicineD-13092 BerlinGermany
  3. 3.Center for BioinformaticsUniversity of HamburgD-20146 HamburgGermany

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