IDEAS home Printed from https://ideas.repec.org/a/plo/pone00/0118288.html
   My bibliography  Save this article

Quality Control Test for Sequence-Phenotype Assignments

Author

Listed:
  • Maria Teresa Lara Ortiz
  • Pablo Benjamín Leon Rosario
  • Pablo Luna-Nevarez
  • Alba Savin Gamez
  • Ana Martínez-del Campo
  • Gabriel Del Rio

Abstract

Relating a gene mutation to a phenotype is a common task in different disciplines such as protein biochemistry. In this endeavour, it is common to find false relationships arising from mutations introduced by cells that may be depurated using a phenotypic assay; yet, such phenotypic assays may introduce additional false relationships arising from experimental errors. Here we introduce the use of high-throughput DNA sequencers and statistical analysis aimed to identify incorrect DNA sequence-phenotype assignments and observed that 10–20% of these false assignments are expected in large screenings aimed to identify critical residues for protein function. We further show that this level of incorrect DNA sequence-phenotype assignments may significantly alter our understanding about the structure-function relationship of proteins. We have made available an implementation of our method at http://bis.ifc.unam.mx/en/software/chispas.

Suggested Citation

  • Maria Teresa Lara Ortiz & Pablo Benjamín Leon Rosario & Pablo Luna-Nevarez & Alba Savin Gamez & Ana Martínez-del Campo & Gabriel Del Rio, 2015. "Quality Control Test for Sequence-Phenotype Assignments," PLOS ONE, Public Library of Science, vol. 10(2), pages 1-16, February.
    • Handle: RePEc:plo:pone00:0118288
    DOI: 10.1371/journal.pone.0118288
    as

    Download full text from publisher

    File URL: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0118288
    Download Restriction: no
    File URL: https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0118288&type=printable
    Download Restriction: no
    File URL: https://libkey.io/10.1371/journal.pone.0118288?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
    ---><---

    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:plo:pone00:0118288. 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: plosone (email available below). General contact details of provider: https://journals.plos.org/plosone/ .

    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.