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Nucleic Acids Research, 2001, Vol. 29, No. 5 1185-1190
© 2001 Oxford University Press

GeneSplicer: a new computational method for splice site prediction

Mihaela Pertea, Xiaoying Lin and Steven L. Salzberg*

The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA

GeneSplicer is a new, flexible system for detecting splice sites in the genomic DNA of various eukaryotes. The system has been tested successfully using DNA from two reference organisms: the model plant Arabidopsis thaliana and human. It was compared to six programs representing the leading splice site detectors for each of these species: NetPlantGene, NetGene2, HSPL, NNSplice, GENIO and SpliceView. In each case GeneSplicer performed comparably to the best alternative, in terms of both accuracy and computational efficiency.

* To whom correspondence should be addressed. Tel: +1 301 315 2537; Fax: +1 301 838 0208; Email: salzberg@tigr.org


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