Identification of protein coding regions in the human genome by quadratic discriminant analysis

A new method for predicting internal coding exons in genomic DNA sequences has been developed. This method is based on a prediction algorithm that uses the quadratic discriminant function for multivariate statistical pattern recognition. Substantial improvements have been made (with only 9 discriminant variables) when compared with existing methods: hexon [Solovyev, V. V., Salamov, A. A. & Lawrence, C. B. (1994) Nucleic Acids Res. 22, 5156–5163] (based on linear discriminant analysis) and grail2 [Uberbacher, E. C. & Mural, R. J. (1991) Proc. Natl. Acad. Sci. USA 88, 11261–11265] (based on neural networks). A computer program called mzef is freely available to the genome community and allows users to adjust prior probability and to output alternative overlapping exons.