Finding association rules of cis-regulatory elements involved in alternative splicing

Alternative splicing (AS) is a major mechanism to generate protein diversity. A single gene might generate hundreds or even thousands of different proteins. Recently, powerful large-scale AS profiling microarrays have been developed, but computational methods which investigate the regulation of AS are still lagging behind. Researchers have focused on finding cis-regulatory motifs in pre-mRNA sequences. However, most studies are searching for single motifs, while many splicing events seem to be regulated by a combination of splicing factors. In this paper, we use association rule mining to discover cisregulatory motifs that are responsible for distinct alternative splicing patterns in 10 mouse tissues. The inferred association rules indicate that alternative splicing pattern in different tissues might be explained by different motif combinations. Many of our discovered cis-regulatory motif candidates coincide with known splicing factor binding sites. Keywords Alternative Splicing, Spli...

• Type: Conference
• Year: 2007
• Where: ACMSE
• Authors: Jihye Kim, Sihui Zhao, Steffen Heber
• Keywords: ACMSE 2007, Alternative Splicing, Alternative Splicing Pattern, Splicing Factor, Theoretical Computer Science