Sequence motifs predictive of tissue-specific skipping
Massachusetts Institute of Technology. Dept. of Electrical Engineering and Computer Science.
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Alternative splicing plays a major role in protein diversity and regulating gene expression. Motifs that regulate tissue-specific alternative splicing have been identified by groups studying small sets of genes. We introduce a tissue-specific skipping score for skipped exons using exon-exon junction microarray data. We compare these exons with known literature-verified EST skipped exons and exons predicted to be skipped in both human and mouse. After deriving tissue-specific skipped exon sets for brain, heart, muscle and testis, we find sequence features in the exon and flanking introns that distinguish these tissue-specific skipped exons from constitutive exons. Lastly, we use sequence-based scoring based on these features to predict tissue-specific skipped exons and compare these with EST data to demonstrate the tissue-specificity of the motifs.
Thesis (S.M.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2006.Includes bibliographical references (p. 53-55).
DepartmentMassachusetts Institute of Technology. Dept. of Electrical Engineering and Computer Science.; Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science
Massachusetts Institute of Technology
Electrical Engineering and Computer Science.