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PubMed · 16120591

[Comparison study on the methods for finding borders between coding and non-coding DNA regions in rice].

Yi-Gang Sun·Lei Gao·Zhong-Hua Zhang·Qing-Zhong Xue
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Abstract

Entropy-based divergence measures have provided an impelling tool in evaluating sequence complexity, predicting CpG island, and detecting borders between coding and non-coding DNA regions etc. In this paper, two new divergence measures: the alpha-KL divergence and the alpha-Jensen-Shannon divergence were defined and a coarse-graining vector of amino acids- corresponding codons was proposed according to codons GC-content, in order to improve the computational approach to finding borders between coding and non-coding in rice. A comparison of the accuracies gained by different vectors (the Jensen-Shannon divergence, the Jensen-Renyi divergence, the alpha-KL divergence and the alpha-Jensen -Shannon divergence) showed that recognition efficiency based on the new information measures with the vector coarse-graining increase by 4-5 times than that of Bernaola's method in the 'stop codon' of coding regions in rice.

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AlgorithmsAmino AcidsBase CompositionCodonComputational BiologyDNA, PlantGenetic CodeOpen Reading FramesOryzaComparative StudyEnglish AbstractJournal ArticleResearch Support, Non-U.S. Gov't

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Yi-Gang Sun, Lei Gao, Zhong-Hua Zhang, Qing-Zhong Xue. 2005. [Comparison study on the methods for finding borders between coding and non-coding DNA regions in rice].. https://pubmed.ncbi.nlm.nih.gov/16120591/

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