IDEAS home Printed from https://ideas.repec.org/a/bla/stanee/v60y2006i4p414-437.html
   My bibliography  Save this article

Approaches to multiplicity issues in complex research in microarray analysis

Author

Listed:
  • Daniel Yekutieli
  • Anat Reiner‐Benaim
  • Yoav Benjamini
  • Gregory I. Elmer
  • Neri Kafkafi
  • Noah E. Letwin
  • Norman H. Lee

Abstract

The multiplicity problem is evident in the simplest form of statistical analysis of gene expression data – the identification of differentially expressed genes. In more complex analysis, the problem is compounded by the multiplicity of hypotheses per gene. Thus, in some cases, it may be necessary to consider testing millions of hypotheses. We present three general approaches for addressing multiplicity in large research problems. (a) Use the scalability of false discovery rate (FDR) controlling procedures; (b) apply FDR‐controlling procedures to a selected subset of hypotheses; (c) apply hierarchical FDR‐controlling procedures. We also offer a general framework for ensuring reproducible results in complex research, where a researcher faces more than just one large research problem. We demonstrate these approaches by analyzing the results of a complex experiment involving the study of gene expression levels in different brain regions across multiple mouse strains.

Suggested Citation

  • Daniel Yekutieli & Anat Reiner‐Benaim & Yoav Benjamini & Gregory I. Elmer & Neri Kafkafi & Noah E. Letwin & Norman H. Lee, 2006. "Approaches to multiplicity issues in complex research in microarray analysis," Statistica Neerlandica, Netherlands Society for Statistics and Operations Research, vol. 60(4), pages 414-437, November.
    • Handle: RePEc:bla:stanee:v:60:y:2006:i:4:p:414-437
    DOI: 10.1111/j.1467-9574.2006.00343.x
    as

    Download full text from publisher

    File URL: https://doi.org/10.1111/j.1467-9574.2006.00343.x
    Download Restriction: no
    File URL: https://libkey.io/10.1111/j.1467-9574.2006.00343.x?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
    ---><---

    Citations

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


    Cited by:

    1. Ferreira José A. & Berkhof Johannes & Souverein Olga & Zwinderman Koos, 2009. "A Multiple Testing Approach to High-Dimensional Association Studies with an Application to the Detection of Associations between Risk Factors of Heart Disease and Genetic Polymorphisms," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 8(1), pages 1-58, January.
    2. Rubin, Mark, 2021. "When to adjust alpha during multiple testing: A consideration of disjunction, conjunction, and individual testing," MetaArXiv tj6pm, Center for Open Science.
    3. Cai, Qingyun, 2018. "A scoring criterion for rejection of clustered p-values," Computational Statistics & Data Analysis, Elsevier, vol. 121(C), pages 180-189.
    4. Anat Reiner-Benaim, 2016. "Scan Statistic Tail Probability Assessment Based on Process Covariance and Window Size," Methodology and Computing in Applied Probability, Springer, vol. 18(3), pages 717-745, September.

    More about this item

    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:bla:stanee:v:60:y:2006:i:4:p:414-437. 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: Wiley Content Delivery (email available below). General contact details of provider: http://www.blackwellpublishing.com/journal.asp?ref=0039-0402 .

    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.