Splicing is a complex process regulated by sequence at the classical splice 
sites and other motifs in exons and introns with an enhancing or silencing 
effect. In addition, specific histone modifications on nucleosomes positioned 
over the exons have been shown to correlate both positively and negatively with 
exon expression. Here, we trained a model of "IF … THEN …" rules to predict exon 
inclusion levels in a transcript from histone modification patterns. 
Furthermore, we showed that combinations of histone modifications, in particular 
those residing on nucleosomes preceding or succeeding the exon, are better 
predictors of exon inclusion levels than single modifications. The resulting 
model was evaluated with cross validation and had an average accuracy of 72% for 
27% of the exons, which demonstrates that epigenetic signals substantially mark 
alternative splicing.