title: Extracting quantitative genetic interaction phenotypes from matrix combinatorial RNAi.
abstract: BACKGROUND
  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.
  
  
  RESULTS
  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.
  
  
  CONCLUSIONS
  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.
authors.affiliation: EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK. elin@embl.de
authors.forename: Elin
authors.initials: E
authors.lastname: Axelsson
authors.forename: Thomas
authors.initials: T
authors.lastname: Sandmann
authors.forename: Thomas
authors.initials: T
authors.lastname: Horn
authors.forename: Michael
authors.initials: M
authors.lastname: Boutros
authors.forename: Wolfgang
authors.initials: W
authors.lastname: Huber
authors.forename: Bernd
authors.initials: B
authors.lastname: Fischer
mesh_terms: D000818:Animals; D002478:Cells, Cultured; D030541:Databases, Genetic; D004330:Drosophila; D004843:Epistasis, Genetic; D005838:Genotype; D006801:Humans; D010641:Phenotype; D034622:RNA Interference