Identifying the 3 '-terminal exon human DNA

Tabaska, J. E., Davuluri, R. V., Zhang, M. Q. (July 2001) Identifying the 3 '-terminal exon human DNA. Bioinformatics, 17 (7). pp. 602-607. ISSN 1367-4803

URL: http://www.ncbi.nlm.nih.gov/pubmed/11448878
DOI: 10.1093/bioinformatics/17.7.602

Abstract

Motivation: We present JTEF, a new program for finding 3 ' terminal exons in human DNA sequences. This program is based on quadratic discriminant analysis, a standard nonlinear statistical pattern recognition method. The quadratic discriminant functions used for building the algorithm were trained on a set of 3 ' terminal exons of type 3tuexon (those containing the true STOP codon). Results: We showed that the average predictive accuracy of JTEF is higher than the presently available best programs (GenScan and Genemark.hmm) based on a test set of 65 human DNA sequences with 121 genes. In particular JTEF performs well on larger genomic contigs containing multiple genes and significant amounts of intergenic DNA. It will become a valuable tool for genome annotation and gene functional studies.

Item Type: Paper
Uncontrolled Keywords: UNTRANSLATED REGIONS MESSENGER-RNAS IDENTIFICATION PREDICTION SEQUENCES FEATURES
Subjects: bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification
bioinformatics > genomics and proteomics > genetics & nucleic acid processing
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > exons
CSHL Authors:
Communities: CSHL labs > Zhang lab
Depositing User: Matt Covey
Date: July 2001
Date Deposited: 15 Jan 2014 22:06
Last Modified: 15 Jan 2014 22:06
Related URLs:
URI: http://repository.cshl.edu/id/eprint/29314

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