Abstract
In this paper, we propose two four-base related 2D curves of DNA primary sequences (termed as F-B curves) and their corresponding single-base related 2D curves (termed as A-related, G-related, T-related and C-related curves). The constructions of these graphical curves are based on the assignments of individual base to four different sinusoidal (or tangent) functions; then by connecting all these points on these four sinusoidal (tangent) functions, we can get the F-B curves; similarly, by connecting the points on each of the four sinusoidal (tangent) functions, we get the single-base related 2D curves. The proposed 2D curves are all strictly non degenerate. Then, a 8-component characteristic vector is constructed to compare similarity among DNA sequences from different species based on a normalized geometrical centers of the proposed curves. As examples, we examine similarity among the coding sequences of the first exon of beta-globin gene from eleven species, similarity of cDNA sequences of beta-globin gene from eight species, and similarity of the whole mitochondrial genomes of 18 eutherian mammals. The experimental results well demonstrate the effectiveness of the proposed method.
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05 June 2018
In the original publication of the article, the y axis labels present in Figs. 1a and 2a are incorrect. The correct Figs. 1a and 2a are provided here.
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Acknowledgements
This work has been supported in part by the National Natural Science Foundation of China Grants 61103138, 61702163; the Fundamental Research Funds for the Henan Provincial Colleges and Universities in Henan University of Technology(2016RCJH06); the National Key Research and Development Program (2016YFD0400104-5); and the Henan International Cooperation Project (Grant 152102410036).
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Xie, GS., Jin, XB., Yang, C. et al. Graphical Representation and Similarity Analysis of DNA Sequences Based on Trigonometric Functions. Acta Biotheor 66, 113–133 (2018). https://doi.org/10.1007/s10441-018-9324-0
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DOI: https://doi.org/10.1007/s10441-018-9324-0