Identification of Protein Coding Regions in the Human Genome by Quadratic Discriminant Analysis

• Published in: Proceedings of the National Academy of Sciences - PNAS Vol. 94; no. 2; pp. 565 - 568
• Main Author: Zhang, M. Q.
• Format: Journal Article
• Language: English
• Published: United States National Academy of Sciences of the United States of America 21.01.1997; National Acad Sciences; National Academy of Sciences; The National Academy of Sciences of the USA
• Subjects: Algorithms; Base Sequence; Biological Sciences; Deoxyribonucleic acid; Discriminant analysis; Discriminants; DNA; Exons; Genes; Genomes; Genomics; Human Genome Project; Humans; Linear discriminant analysis; Molecular Sequence Data; Multivariate Analysis; Murals; Nucleic acids; Pattern recognition; Proteins - genetics; Sequence Analysis, DNA - methods; Software
• ISSN: 0027-8424; 1091-6490; 1091-6490
• DOI: 10.1073/pnas.94.2.565

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.