IDEAS home Printed from https://ideas.repec.org/a/eee/phsmap/v361y2006i2p569-588.html
   My bibliography  Save this article

Long memory analysis in DNA sequences

Author

Listed:
  • Lopes, S.R.C.
  • Nunes, M.A.

Abstract

Our goal in this work is to construct empirical confidence intervals for the fractional parameter d in ARFIMA(0,d,0) processes. Through these confidence intervals one can compare several estimators for d to decide which one is the best estimation method related to long memory time series. We use a fortran routine that simulates random time series to later perform an analysis for detecting long memory. We also apply the methodology to real DNA sequences to evaluate the efficiency of our method in the construction of these confidence intervals.

Suggested Citation

  • Lopes, S.R.C. & Nunes, M.A., 2006. "Long memory analysis in DNA sequences," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 361(2), pages 569-588.
    • Handle: RePEc:eee:phsmap:v:361:y:2006:i:2:p:569-588
    DOI: 10.1016/j.physa.2005.06.099
    as

    Download full text from publisher

    File URL: http://www.sciencedirect.com/science/article/pii/S0378437105007302
    Download Restriction: Full text for ScienceDirect subscribers only. Journal offers the option of making the article available online on Science direct for a fee of $3,000
    File URL: https://libkey.io/10.1016/j.physa.2005.06.099?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    References listed on IDEAS

    as
    1. Sowell, Fallaw, 1992. "Maximum likelihood estimation of stationary univariate fractionally integrated time series models," Journal of Econometrics, Elsevier, vol. 53(1-3), pages 165-188.
    2. Weron, Rafał, 2002. "Estimating long-range dependence: finite sample properties and confidence intervals," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 312(1), pages 285-299.
    3. Valderio A. Reisen, 1994. "ESTIMATION OF THE FRACTIONAL DIFFERENCE PARAMETER IN THE ARIMA(p, d, q) MODEL USING THE SMOOTHED PERIODOGRAM," Journal of Time Series Analysis, Wiley Blackwell, vol. 15(3), pages 335-350, May.
    4. Stanley, H.E & Buldyrev, S.V & Goldberger, A.L & Havlin, S & Peng, C.-K & Simons, M, 1999. "Scaling features of noncoding DNA," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 273(1), pages 1-18.
    5. C. W. J. Granger & Roselyne Joyeux, 1980. "An Introduction To Long‐Memory Time Series Models And Fractional Differencing," Journal of Time Series Analysis, Wiley Blackwell, vol. 1(1), pages 15-29, January.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Gao, Jie & Xu, Zhen-yuan & Zhang, Li-ting, 2009. "Approximating long-memory DNA sequences by short-memory process," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 388(17), pages 3475-3485.
    2. Asgari, Ali & Si, Wujun & Yuan, Liang & Krishnan, Krishna & Wei, Wei, 2024. "Multivariable degradation modeling and life prediction using multivariate fractional Brownian motion," Reliability Engineering and System Safety, Elsevier, vol. 248(C).
    3. Marques, G.O.L.C., 2011. "Empirical aspects of the Whittle-based maximum likelihood method in jointly estimating seasonal and non-seasonal fractional integration parameters," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 390(1), pages 8-17.
    4. Kembro, Jackelyn M. & Flesia, Ana Georgina & Gleiser, Raquel M. & Perillo, María A. & Marin, Raul H., 2013. "Assessment of long-range correlation in animal behavior time series: The temporal pattern of locomotor activity of Japanese quail (Coturnix coturnix) and mosquito larva (Culex quinquefasciatus)," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 392(24), pages 6400-6413.
    5. N. Crato & R. R. Linhares & S. R.C. Lopes, 2011. "α-stable laws for noncoding regions in DNA sequences," Journal of Applied Statistics, Taylor & Francis Journals, vol. 38(2), pages 261-271, September.

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Baillie, Richard T., 1996. "Long memory processes and fractional integration in econometrics," Journal of Econometrics, Elsevier, vol. 73(1), pages 5-59, July.
    2. Avci-Surucu, Ezgi & Aydogan, A. Kursat & Akgul, Doganbey, 2016. "Bidding structure, market efficiency and persistence in a multi-time tariff setting," Energy Economics, Elsevier, vol. 54(C), pages 77-87.
    3. Bhardwaj, Shivam & Gadre, Vikram M. & Chandrasekhar, E., 2020. "Statistical analysis of DWT coefficients of fGn processes using ARFIMA(p,d,q) models," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 547(C).
    4. Erhard Reschenhofer & Manveer K. Mangat, 2021. "Fast computation and practical use of amplitudes at non-Fourier frequencies," Computational Statistics, Springer, vol. 36(3), pages 1755-1773, September.
    5. Guglielmo Maria Caporale & Luis A. Gil-Alana, 2020. "Modelling Loans to Non-Financial Corporations within the Eurozone: A Long-Memory Approach," CESifo Working Paper Series 8674, CESifo.
    6. Paramsothy Silvapulle, 2001. "A Score Test For Seasonal Fractional Integration And Cointegration," Econometric Reviews, Taylor & Francis Journals, vol. 20(1), pages 85-104.
    7. Choi, Kyongwook & Yu, Wei-Choun & Zivot, Eric, 2010. "Long memory versus structural breaks in modeling and forecasting realized volatility," Journal of International Money and Finance, Elsevier, vol. 29(5), pages 857-875, September.
    8. M. Angeles Carnero & Siem Jan Koopman & Marius Ooms, 2003. "Periodic Heteroskedastic RegARFIMA Models for Daily Electricity Spot Prices," Tinbergen Institute Discussion Papers 03-071/4, Tinbergen Institute.
    9. Manveer Kaur Mangat & Erhard Reschenhofer, 2020. "Frequency-Domain Evidence for Climate Change," Econometrics, MDPI, vol. 8(3), pages 1-15, July.
    10. Abadir, Karim M. & Caggiano, Giovanni & Talmain, Gabriel, 2013. "Nelson–Plosser revisited: The ACF approach," Journal of Econometrics, Elsevier, vol. 175(1), pages 22-34.
    11. Guglielmo Maria Caporale & Luis A. Gil‐Alana, 2004. "Fractional cointegration and real exchange rates," Review of Financial Economics, John Wiley & Sons, vol. 13(4), pages 327-340.
    12. Elkin Castaño & Santiago Gallón & Karoll Gómez, 2010. "Estimation Biases, Size and Power of a Test on the Long Memory Parameter in ARFIMA Models," Lecturas de Economía, Universidad de Antioquia, Departamento de Economía, issue 73, pages 131-148.
    13. Grassi, Stefano & Santucci de Magistris, Paolo, 2014. "When long memory meets the Kalman filter: A comparative study," Computational Statistics & Data Analysis, Elsevier, vol. 76(C), pages 301-319.
    14. S. Lardic & V. Mignon, 2002. "Term premium and long-range dependence in volatility : A FIGARCH-M estimation on some Asian countries," THEMA Working Papers 2002-26, THEMA (THéorie Economique, Modélisation et Applications), Université de Cergy-Pontoise.
    15. Kunal Saha & Vinodh Madhavan & Chandrashekhar G. R. & David McMillan, 2020. "Pitfalls in long memory research," Cogent Economics & Finance, Taylor & Francis Journals, vol. 8(1), pages 1733280-173, January.
    16. Silverberg, Gerald & Verspagen, Bart, 1999. "Long Memory in Time Series of Economic Growth and Convergence," Research Memorandum 015, Maastricht University, Maastricht Economic Research Institute on Innovation and Technology (MERIT).
    17. Christopher F. Baum & John T. Barkoulas & Mustafa Caglayan, 1999. "Persistence in International Inflation Rates," Southern Economic Journal, John Wiley & Sons, vol. 65(4), pages 900-913, April.
    18. J. Eduardo Vera‐Valdés, 2020. "On long memory origins and forecast horizons," Journal of Forecasting, John Wiley & Sons, Ltd., vol. 39(5), pages 811-826, August.
    19. Maharaj, E.A., 1999. "A Test for the Difference Parameter of the ARFIMA Model Using the Moving Blocks Bootstrap," Monash Econometrics and Business Statistics Working Papers 11/99, Monash University, Department of Econometrics and Business Statistics.
    20. Michael J. Dueker & Richard Startz, 1997. "Maximum-likelihood estimation of fractional cointegration with application to the short end of the yield curve," Working Papers 1994-027, Federal Reserve Bank of St. Louis.

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:eee:phsmap:v:361:y:2006:i:2:p:569-588. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Catherine Liu (email available below). General contact details of provider: http://www.journals.elsevier.com/physica-a-statistical-mechpplications/ .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.