SPA: Simple web tool to assess statistical significance of DNA patterns

Nucleic Acids Res. 2003 Jul 1;31(13):3679-81. doi: 10.1093/nar/gkg613.

Abstract

Many statistical methods and programs are available to compute the significance of a given DNA pattern in a genome sequence. In this paper, after outlining the mathematical background of this problem, we present SPA (Statistic for PAtterns), an expert system with a simple web interface designed to be applied to two of these methods (large deviation approximations and exact computations using simple recurrences). A few results are presented, leading to a comparison between the two methods and to a simple decision rule in the choice of that to be used. Finally, future developments of SPA are discussed. This tool is available at the following address: http://stat.genopole.cnrs.fr/SPA/.

Publication types

  • Comparative Study
  • Evaluation Study

MeSH terms

  • Data Interpretation, Statistical
  • Internet
  • Markov Chains
  • Regulatory Sequences, Nucleic Acid*
  • Sequence Analysis, DNA / methods*
  • Software*
  • User-Computer Interface