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How many transcripts does it take to reconstruct the splice graph?
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Jenkins, Paul, Lyngsø, Rune and Hein, Jotun (2006) How many transcripts does it take to reconstruct the splice graph? In: Algorithms in Bioinformatics. Lecture Notes in Computer Science, Vol.4175 . Berlin: Springer Verlag, pp. 103-114. ISBN 9783540395836
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Official URL: http://dx.doi.org/10.1007/11851561_10
Abstract
Alternative splicing has emerged as an important biological process which increases the number of transcripts obtainable from a gene. Given a sample of transcripts, the alternative splicing graph (ASG) can be constructed—a mathematical object minimally explaining these transcripts. Most research has so far been devoted to the reconstruction of ASGs from a sample of transcripts, but little has been done on the confidence we can have in these ASGs providing the full picture of alternative splicing. We address this problem by proposing probabilistic models of transcript generation, under which growth of the inferred ASG is investigated. These models are used in novel methods to test the nature of the collection of real transcripts from which the ASG was derived, which we illustrate on example genes. Statistical comparisons of the proposed models were also performed, showing evidence for variation in the pattern of dependencies between donor and acceptor sites
| Item Type: | Book Item | ||||
|---|---|---|---|---|---|
| Divisions: | Faculty of Science, Engineering and Medicine > Science > Statistics | ||||
| Series Name: | Lecture Notes in Computer Science | ||||
| Publisher: | Springer Verlag | ||||
| Place of Publication: | Berlin | ||||
| ISBN: | 9783540395836 | ||||
| ISSN: | 0302-9743 | ||||
| Book Title: | Algorithms in Bioinformatics | ||||
| Official Date: | 2006 | ||||
| Dates: |
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| Volume: | Vol.4175 | ||||
| Page Range: | pp. 103-114 | ||||
| DOI: | 10.1007/11851561_10 | ||||
| Status: | Peer Reviewed | ||||
| Publication Status: | Published | ||||
| Description: | Proceedings of the International Workshop, WABI 2006, Zurich, Switzerland, September 11-13, 2006. |
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