IDEAS home Printed from https://ideas.repec.org/a/bpj/sagmbi/v12y2013i3p361-374n1005.html
   My bibliography  Save this article

Statistical issues associated with modeling of synonymous mutation data

Author

Listed:
  • Huzurbazar Snehalata

    (Statistical and Applied Mathematical Sciences Institute, 19 T.W. Alexander Drive, P.O. Box 14006, Research Triangle Park, NC 27709-4006, USA Department of Statistics, University of Wyoming, Dept. 3332, 1000 E. University Ave, Laramie, WY 82071, USA Department of Statistics, North Carolina State University, 5109 SAS Hall, 2311 Stinson Drive, Raleigh, NC 27695-8203, USA)

  • Singh Sarabdeep

    (National Center for Biotechnology Information, National Institutes of Health, Bldg. 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA)

  • Schlueter Jessica A.

    (Bioinformatics and Genomics, University of North Carolina at Charlotte, 9201 University City Blvd., Bioinformatics, Room 309, Charlotte, NC 28223, USA)

Abstract

The explosion of data in evolutionary bioinformatics has led to sometimes ad hoc, incomplete and even inaccurate data analyses. Taking dS data, namely, data on synonymous substitutions per synonymous sites, we go through a statistical analysis for modeling the time since duplications of genes. We explore the shortcomings of previous analyses, especially with a view towards their effect on inference for the gene duplication process. We present a statistical analysis which respects the assumptions of the models and the integrity of the data, and emphasize that exploratory data analysis, formulation of a data model, its estimation and finally, assessment of the model are important steps in a complete data analysis. Furthermore, for dS data, we develop Bayesian discrete-continuous mixture models and present analyses using two genomes.

Suggested Citation

  • Huzurbazar Snehalata & Singh Sarabdeep & Schlueter Jessica A., 2013. "Statistical issues associated with modeling of synonymous mutation data," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 12(3), pages 361-374.
    • Handle: RePEc:bpj:sagmbi:v:12:y:2013:i:3:p:361-374:n:1005
    DOI: 10.1515/sagmb-2012-0033
    as

    Download full text from publisher

    File URL: https://doi.org/10.1515/sagmb-2012-0033
    Download Restriction: For access to full text, subscription to the journal or payment for the individual article is required.
    File URL: https://libkey.io/10.1515/sagmb-2012-0033?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

    for a different version of it.

    More about this item

    Keywords

    ;
    ;
    ;
    ;
    ;

    Statistics

    Access and download statistics

    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:bpj:sagmbi:v:12:y:2013:i:3:p:361-374:n:1005. 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.

    We have no bibliographic references for this item. You can help adding them by using 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: Peter Golla (email available below). General contact details of provider: https://www.degruyterbrill.com .

    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.