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Citation
Axelsson, E., Sandmann, T., Horn, T., Boutros, M., Huber, W., Fischer, B. (2011). Extracting quantitative genetic interaction phenotypes from matrix combinatorial RNAi.  BMC Bioinformatics 12(): 342.
FlyBase ID
FBrf0215222
Publication Type
Research paper
Abstract

Systematic measurement of genetic interactions by combinatorial RNAi (co-RNAi) is a powerful tool for mapping functional modules and discovering components. It also provides insights into the role of epistasis on the way from genotype to phenotype. The interpretation of co-RNAi data requires computational and statistical analysis in order to detect interactions reliably and sensitively.We present a comprehensive approach to the analysis of univariate phenotype measurements, such as cell growth. The method is based on a quantitative model and is demonstrated on two example Drosophila cell culture data sets. We discuss adjustments for technical variability, data quality assessment, model parameter fitting and fit diagnostics, choice of scale, and assessment of statistical significance.As a result, we obtain quantitative genetic interactions and interaction networks reflecting known biological relationships between target genes. The reliable extraction of presence, absence, and strength of interactions provides insights into molecular mechanisms.

PubMed ID
PubMed Central ID
PMC3230910 (PMC) (EuropePMC)
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Secondary IDs
    Language of Publication
    English
    Additional Languages of Abstract
    Parent Publication
    Publication Type
    Journal
    Abbreviation
    BMC Bioinformatics
    Title
    BMC Bioinformatics
    Publication Year
    2000-
    ISBN/ISSN
    1471-2105
    Data From Reference