Mining of cis-Regulatory Motifs Associated with Tissue-Specific Alternative Splicing

KIM, JIHYE. Mining of Cis-Regulatory Motifs Associated with Tissue-Specific Alternative Splicing. (Under the direction of Steffen Heber). Alternative splicing (AS) is an important post-transcriptional mechanism that increases protein diversity and may affect mRNA stability and translation efficiency. Despite its importance, our knowledge about its mechanism and regulation is very limited. Although it is known that the regulation of AS is influenced by multiple factors, most previous studies have focused on analyzing an individual regulator. In this dissertation, we apply three types of association rule mining techniques to discover cis-regulatory motifs or motif groups that are associated with specific AS patterns in mouse. General association rule mining for categorical attributes is used to find “motif=>motif” rules in gene groups that show similar exon skipping patterns. This method provides candidates for interacting motifs. Discretization-based and distribution-based quant...

• Type: Conference
• Year: 2009
• Where: ISBRA
• Authors: Jihye Kim, Sihui Zhao, Brian E. Howard, Steffen Heber
• Keywords: Association Rule Mining, Bioinformatics, Cis-regulatory Motifs, ISBRA 2009, Rule Mining Techniques