In some cases, the nonlinear effects can hide a locus from detection even though at the model level (e.g., in Eqs. (3, 4)) it has a direct linear effect on the phenotype y.
A novel locus, hidden in the original single-trait analysis, was detected, where the rare allele showed significantly higher response to P. syringae pv.
When can nonlinear effects hide causal loci from linear regression (Step 1)?
A number of related issues are discussed: When can nonlinear effects hide causal loci from linear regression (Step 1)?
The two-locus QC detects hidden (rare) haplotypes across two loci that are associated with disease status.
In the rest of the paper, we demonstrate how a locus, previously hidden in conventional single-trait analysis, can now be detected via our multivariate technique.
To detect QTLs hidden by the strong locus on chromosome 10, we performed composite QTL mapping.
As stated above, hidden population subdivision at loci responding to selective gradients can bias tests such as those applied here [ 36].
