Pombe: a gene-finding and exon-intron structure prediction system for fission yeast.
A special program developed by the authors, called Pombe, identifies protein coding regions in the Schizosaccharomyces pombe genome. Linear discriminant analysis was applied to predict 5'-terminal, internal, 3'-terminal exons (coding-exon) and introns. The accuracy of the prediction was tested by cross verifications. The sensitivity, specificity and correlation coefficient for the internal exon prediction were 98.5%, 99.9% and 98.3% respectively at the nucleotide level. Open reading frames were studied and used to predict intron-less genes: 99.0% of such genes were identified with correct stopping sites. The gene structure was determined by dynamic programming and the prediction achieved 97.0% correlation coefficient at the nucleotide level. The program is available at http:(/)/clio.cshl.org/genefinder.
Chen
T
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Department of Computer Science, State University of New York, Stony Brook 11794-4400, USA.
Zhang
M Q
MQ
D000465:Algorithms; D018388:Codon, Terminator / Q000235:genetics; D005091:Exons / Q000235:genetics; D005800:Genes, Fungal; D007438:Introns / Q000235:genetics; D016366:Open Reading Frames / Q000235:genetics*; D012326:RNA Splicing / Q000235:genetics; D015203:Reproducibility of Results; D012568:Schizosaccharomyces / Q000235:genetics*; D012680:Sensitivity and Specificity; D012984:Software
D018388:Codon, Terminator