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A non-EST-based method for exon-skipping prediction.

Abstract：

:It is estimated that between 35% and 74% of all human genes can undergo alternative splicing. Currently, the most efficient methods for large-scale detection of alternative splicing use expressed sequence tags (ESTs) or microarray analysis. As these methods merely sample the transcriptome, splice variants that do not appear in deeply sampled tissues have a low probability of being detected. We present a new method by which we can predict that an internal exon is skipped (namely whether it is a cassette-exon) merely based on its naked genomic sequence and on the sequence of its mouse ortholog. No other data, such as ESTs, are required for the prediction. Using our method, which was experimentally validated, we detected hundreds of novel splice variants that were not detectable using ESTs. We show that a substantial fraction of the splice variants in the human genome could not be identified through current human EST or cDNA data.

journal_name

Genome Res

journal_title

Genome research

authors

Sorek R,Shemesh R,Cohen Y,Basechess O,Ast G,Shamir R

doi

10.1101/gr.2572604

subject

Has Abstract

pub_date

2004-08-01 00:00:00

pages

1617-23

issue

8

eissn

1088-9051

issn

1549-5469

pii

14/8/1617

journal_volume

14

pub_type

杂志文章

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