Strong/Weak Feature Recognition of Promoters Based on Position Weight Matrix and Ensemble Set-Valued Models

Abstract

Abstract

In this article, we propose a method to recognize the strong/weak property of the promoters based on the nucleotide sequence. To the best of our knowledge, it is the first time to predict the strong/weak property of the promoters. First, position weight matrix (PWM) is used to evaluate the contributions of the nucleotides to the promoter strength. Then, the set-valued model is used to describe the relation between the nucleotide sequence and the strength. Considering the small-sample and imbalance features of the promoter data, we propose an ensemble approach to predict the strong/weak property of the promoters. The proposed method is used to recognize 60 \documentclass{aastex}\usepackage{amsbsy}\usepackage{amsfonts}\usepackage{amssymb}\usepackage{bm}\usepackage{mathrsfs}\usepackage{pifont}\usepackage{stmaryrd}\usepackage{textcomp}\usepackage{portland, xspace}\usepackage{amsmath, amsxtra}\usepackage{upgreek}\pagestyle{empty}\DeclareMathSizes{10}{9}{7}{6}\begin{document} $${ \bm {\delta} ^E}$$ \end{document} promoters of Escherichia coli . The results show the effectiveness of the proposed method. This article provides a simple way for a biologist to evaluate the strong/weak feature of promoters from the nucleotide sequence.