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Multifractal detrended cross-correlation analysis of coding and non-coding DNA sequences through chaos-game representation

Author

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  • Pal, Mayukha
  • Satish, B.
  • Srinivas, K.
  • Rao, P. Madhusudana
  • Manimaran, P.

Abstract

We propose a new approach combining the chaos game representation and the two dimensional multifractal detrended cross correlation analysis methods to examine multifractal behavior in power law cross correlation between any pair of nucleotide sequences of unequal lengths. In this work, we analyzed the characteristic behavior of coding and non-coding DNA sequences of eight prokaryotes. The results show the presence of strong multifractal nature between coding and non-coding sequences of all data sets. We found that this integrative approach helps us to consider complete DNA sequences for characterization, and further it may be useful for classification, clustering, identification of class affiliation of nucleotide sequences etc. with high precision.

Suggested Citation

  • Pal, Mayukha & Satish, B. & Srinivas, K. & Rao, P. Madhusudana & Manimaran, P., 2015. "Multifractal detrended cross-correlation analysis of coding and non-coding DNA sequences through chaos-game representation," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 436(C), pages 596-603.
  • Handle: RePEc:eee:phsmap:v:436:y:2015:i:c:p:596-603
    DOI: 10.1016/j.physa.2015.05.018
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    1. V. Plerou & P. Gopikrishnan & L. A. N. Amaral & M. Meyer & H. E. Stanley, 1999. "Scaling of the distribution of price fluctuations of individual companies," Papers cond-mat/9907161, arXiv.org.
    2. Manimaran, P. & Panigrahi, Prasanta K. & Parikh, Jitendra C., 2008. "Difference in nature of correlation between NASDAQ and BSE indices," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 387(23), pages 5810-5817.
    3. Manimaran, P. & Panigrahi, Prasanta K. & Parikh, Jitendra C., 2009. "Multiresolution analysis of fluctuations in non-stationary time series through discrete wavelets," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 388(12), pages 2306-2314.
    4. Kaushik Matia & Yosef Ashkenazy & H. Eugene Stanley, 2003. "Multifractal Properties of Price Fluctuations of Stocks and Commodities," Papers cond-mat/0308012, arXiv.org.
    5. P. Manimaran & Prasanta K. Panigrahi & Jitendra. C. Parikh, 2006. "Difference in nature of correlation between NASDAQ and BSE indices," Papers nlin/0601074, arXiv.org, revised Apr 2008.
    6. He, Ling-Yun & Chen, Shu-Peng, 2011. "Multifractal Detrended Cross-Correlation Analysis of agricultural futures markets," Chaos, Solitons & Fractals, Elsevier, vol. 44(6), pages 355-361.
    7. Cao, Guangxi & Xu, Longbing & Cao, Jie, 2012. "Multifractal detrended cross-correlations between the Chinese exchange market and stock market," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 391(20), pages 4855-4866.
    8. Zhi-Qiang Jiang & Wei-Xing Zhou, 2011. "Multifractal detrending moving average cross-correlation analysis," Papers 1103.2577, arXiv.org, revised Mar 2011.
    9. Gutiérrez, J.M. & Rodrı́guez, M.A. & Abramson, G., 2001. "Multifractal analysis of DNA sequences using a novel chaos-game representation," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 300(1), pages 271-284.
    10. Ma, Feng & Wei, Yu & Huang, Dengshi, 2013. "Multifractal detrended cross-correlation analysis between the Chinese stock market and surrounding stock markets," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 392(7), pages 1659-1670.
    11. Parameswaran Gopikrishnan & Vasiliki Plerou & Luis A. Nunes Amaral & Martin Meyer & H. Eugene Stanley, 1999. "Scaling of the distribution of fluctuations of financial market indices," Papers cond-mat/9905305, arXiv.org.
    12. Serletis, Apostolos & Rosenberg, Aryeh Adam, 2007. "The Hurst exponent in energy futures prices," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 380(C), pages 325-332.
    13. Manimaran, P. & Panigrahi, Prasanta K., 2010. "Statistics of event by event fluctuations," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 389(18), pages 3703-3710.
    14. Pal, Mayukha & Madhusudana Rao, P. & Manimaran, P., 2014. "Multifractal detrended cross-correlation analysis on gold, crude oil and foreign exchange rate time series," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 416(C), pages 452-460.
    15. Ghosh, Sayantan & Manimaran, P. & Panigrahi, Prasanta K., 2011. "Characterizing multi-scale self-similar behavior and non-statistical properties of fluctuations in financial time series," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 390(23), pages 4304-4316.
    16. repec:clg:wpaper:2007-02 is not listed on IDEAS
    17. B. Podobnik & I. Grosse & D. Horvatić & S. Ilic & P. Ch. Ivanov & H. E. Stanley, 2009. "Quantifying cross-correlations using local and global detrending approaches," The European Physical Journal B: Condensed Matter and Complex Systems, Springer;EDP Sciences, vol. 71(2), pages 243-250, September.
    18. Kantelhardt, Jan W. & Zschiegner, Stephan A. & Koscielny-Bunde, Eva & Havlin, Shlomo & Bunde, Armin & Stanley, H.Eugene, 2002. "Multifractal detrended fluctuation analysis of nonstationary time series," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 316(1), pages 87-114.
    19. Gao-Feng Gu & Wei-Xing Zhou, 2010. "Detrending moving average algorithm for multifractals," Papers 1005.0877, arXiv.org, revised Jun 2010.
    20. Li, Zhihui & Lu, Xinsheng, 2012. "Cross-correlations between agricultural commodity futures markets in the US and China," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 391(15), pages 3930-3941.
    21. Wei-Xing Zhou, 2008. "Multifractal detrended cross-correlation analysis for two nonstationary signals," Papers 0803.2773, arXiv.org.
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    Cited by:

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    2. Pal, Mayukha & Kiran, V. Satya & Rao, P. Madhusudana & Manimaran, P., 2016. "Multifractal detrended cross-correlation analysis of genome sequences using chaos-game representation," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 456(C), pages 288-293.
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    4. Li, Yushuang & Liu, Qian & Zheng, Xiaoqi, 2016. "DUC-Curve, a highly compact 2D graphical representation of DNA sequences and its application in sequence alignment," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 456(C), pages 256-270.
    5. Charutha, S. & Gopal Krishna, M. & Manimaran, P., 2020. "Multifractal analysis of Indian public sector enterprises," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 557(C).

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