Sequence motifs predictive of tissue-specific skipping
Name
75285176-MIT.pdf
Description
Full printable version
Size
3.44 MB
Format
Adobe PDF
Checksum (MD5)
21eb65e9df025d653c89378ceae7d3c2
Author(s)
Soni, Neha
Advisor(s)
Tomaso Poggio.
Date Issued
2006
Publisher
Massachusetts Institute of Technology
Abstract
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.
Description
Thesis (S.M.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2006.
Includes bibliographical references (p. 53-55).
Subjects
Electrical Engineering and Computer Science.
MIT Department
Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science
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