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This surprising result probably arises from one or more phenomena including functional gene redundancy and gene compensation; that is, other unidentified genes taking over the function of the knockout gene.
According to Morange, the difficulty in predicting or determining the precise function(s) of a gene, including its role in disease, arises from one or more of the following four phenomena: gene redundancy, gene compensation, networks of gene products, hierarchical structures of gene products.
Consider gene redundancy and gene compensation which Morange states need to be distinguished from each other.