Introduction

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.

Publications

  1. Quality control test for sequence-phenotype assignments.
    Cite this
    Ortiz MT, Rosario PB, Luna-Nevarez P, Gamez AS, Martínez-del Campo A, Del Rio G, 2015-01-01 - PLoS ONE

Credits

  1. Maria Teresa Lara Ortiz
    Developer

    Department of Biochemistry and Structural Biology. Instituto de Fisiología Celular at the Universidad Nacional Autónoma de México, México DF, Mexico

  2. Pablo Benjamín Leon Rosario
    Developer

    Department of Biochemistry and Structural Biology. Instituto de Fisiología Celular at the Universidad Nacional Autónoma de México, México DF, Mexico

  3. Pablo Luna-Nevarez
    Developer

    Department of agronomical sciences and veterinary. Sonora Institute of Technology, Obregon city 85000, Mexico

  4. Alba Savin Gamez
    Developer

    Department of Biochemistry and Structural Biology. Instituto de Fisiología Celular at the Universidad Nacional Autónoma de México, México DF, Mexico

  5. Ana Martínez-del Campo
    Developer

    Department of Genetics. Instituto de Fisiología Celular at the Universidad Nacional Autónoma de México, México DF, Mexico

  6. Gabriel Del Rio
    Investigator

    Department of Biochemistry and Structural Biology. Instituto de Fisiología Celular at the Universidad Nacional Autónoma de México, México DF, Mexico

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Summary
AccessionBT006643
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
Download Count0
Country/RegionMexico
Submitted ByGabriel Del Rio