Thu, 21 Aug 2008 14:04:09 BST CiteULike: neils's Audic http://www.citeulike.org/user/neils/author/Audic CiteULike.org en-gb Copyright © 2004-2008 citeulike.org http://www.citeulike.org/user/neils/article/767961 <i>Comput. Appl. Biosci., Vol. 12, No. 5. (1 October 1996), pp. 431-439.</i><br /><br />MOTIVATION: To improve the detection of nucleotide sequence signals (e.g. promoter elements) by position-weight matrices (PWM) using the concept of statistically significant matches. RESULTS: The Mksite program was originally developed for analyzing protein sequences. We report NMksite, a new version adapted to the processing of nucleotide sequences. NMksite creates PWM from nucleotide sequence block alignments or occurrence tables using three weight computation schemes. An original feature of NMksite is the numerical computation of the statistical significance of PWM matches. The utility of this concept is demonstrated in the context of the prediction of splice sites and promoter regions. AVAILABILITY: Mksite and other components of the MODEST (Motif DEsign and Search Tool) package (written in C/Unix) are available at http://igs-server.cnrs-mrs.fr CONTACT: E-mail: jmc@igs.cnrs-mrs.fr 10.1093/bioinformatics/12.5.431 The statistical significance of nucleotide position-weight matrix matches Jean-Michel Claverie Stephane Audic doi:10.1093/bioinformatics/12.5.431 Comput. Appl. Biosci., Vol. 12, No. 5. (1 October 1996), pp. 431-439. 2006-07-21T07:19:55-00:00 1996 Comput. Appl. Biosci. 12 5 431 439 bioinformatics matrix nucleotide pwm statistics