Detection of polyadenylation signals in human DNA sequences

Tabaska, J. E., Zhang, M. Q. (April 1999) Detection of polyadenylation signals in human DNA sequences. Gene, 231 (1-2). pp. 77-86. ISSN 0378-1119 (Print)

URL: http://www.ncbi.nlm.nih.gov/pubmed/10231571
DOI: 10.1016/S0378-1119(99)00104-3

Abstract

We present polyadq, a program for detection of human polyadenylation signals. To avoid training on possibly flawed data, the development of polyadq began with a de novo characterization of human mRNA 3' processing signals. This information was used in training two quadratic discriminant functions that polyadq uses to evaluate potential polyA signals. In our tests, polyadq predicts polyA signals with a correlation coefficient of 0.413 on whole genes and 0.512 in the last two exons of genes, substantially outperforming other published programs on the same data set. polyadq is also the only program that is able to consistently detect the ATTAAA variant of the polyA signal.

Item Type: Paper
Uncontrolled Keywords: DNA/ genetics Humans Poly A/ metabolism RNA Processing, Post-Transcriptional Research Support, Non-U.S. Gov't Signal Transduction
Subjects: bioinformatics
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification
organs, tissues, organelles, cell types and functions > tissues types and functions > signal transduction
CSHL Authors:
Communities: CSHL labs > Zhang lab
Depositing User: Kathleen Darby
Date: 29 April 1999
Date Deposited: 28 Apr 2014 16:21
Last Modified: 28 Apr 2014 16:21
Related URLs:
URI: http://repository.cshl.edu/id/eprint/29816

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