We found a match
Your institution may have access to this item. Find your institution then sign in to continue.
- Title
Prediction of mRNA polyadenylation sites by support vector machine.
- Authors
Cheng, Yiming; Miura, Robert M; Tian, Bin
- Abstract
mRNA polyadenylation is responsible for the 3' end formation of most mRNAs in eukaryotic cells and is linked to termination of transcription. Prediction of mRNA polyadenylation sites [poly(A) sites] can help identify genes, define gene boundaries, and elucidate regulatory mechanisms. Current methods for poly(A) site prediction achieve moderate sensitivity and specificity. Here, we present a method using support vector machine for poly(A) site prediction. Using 15 cis-regulatory elements that are over-represented in various regions surrounding poly(A) sites, this method achieves higher sensitivity and similar specificity when compared with polyadq, a common tool for poly(A) site prediction. In addition, we found that while the polyadenylation signal AAUAAA and U-rich elements are primary determinants for poly(A) site prediction, other elements contribute to both sensitivity and specificity of the prediction, indicating a combinatorial mechanism involving multiple elements when choosing poly(A) sites in human cells.
- Publication
Bioinformatics (Oxford, England), 2006, Vol 22, Issue 19, p2320
- ISSN
1367-4811
- Publication type
Journal Article
- DOI
10.1093/bioinformatics/btl394