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Overlappnig Alternative Donor Splicing Sites
Ekaterina Ermakova,Ramil Nurtdinov, Mikhail Gelfand
Institute for Information Transmission Problems (the Kharkevich Institute), Russian Academy of Sciences, Russia

Overlapping alternative donor and acceptor sites may have different functional roles: alternative splicing of overlapping acceptor sites mainly leads to microvariations in protein sequences, whereas alternative donor sites often lead to frameshifts and thus either yield major differences in protein sequence and structure, or generate NMD-inducing mRNA isoforms.

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Improved prediction of conserved exon skipping using Bayesian Networks
Rileen Sinha, Ulrike Gausmann, Michael Hiller, Rainer Pudimat, Stefan Schuster, Matthias Platzer, Rolf Backofen
Leibniz Institute Institute for Age Research - Fritz Lipman Institute, Germany

We used Bayesian Networks, a state of the art machine learning tool, to accurately distinguish between alternative and constitutive human exons. Using a combination of previously described features and novel ones, we were able to achieve a performance competitive with the state of the art from the literature.

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Tag-Based Approaches for the Detection of Cis-Encoded Antisense Transcription
Anca Petrescu, Marco Marra, Allen Delaney
Universiy Of British Columbia, Canada

To create a genome-wide catalog of accurate gene expression profiles for mammalian sense-antisense transcripts, we analyzed over 200 publicly available LongSAGE libraries and one Solexa-SAGE library. We found that more than half of the EnsEMBL genes have evidence for antisense transcription throughout mouse development.

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