Computational protocol: Conservation of Distinct Genetically-Mediated Human Cortical Pattern

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Protocol publication

[…] The genetic correlations of surface area between cortical regions were derived using the classical twin modeling for the VETSA samples []. A standard bivariate twin AE model was used to estimate the proportion of phenotypic variance between cortical regions accounted for by additive genetic effects (A) and the individual-specific environmental effects (E) for each measure []. The structural equation modeling (SEM) application OpenMx was used to calculate and standardize the genetic covariance matrix yielding the genetic correlation matrix. [...] A standard bivariate variance component model [] similar to the bivariate twin model was used to calculate genetic correlations of inter-regional cortical surface areas for the C5C. In the model, the phenotype was expressed as a linear function of the sum of additive genetic effects and the residual effects. But different from the twin model, the genetic component, in particular, the genetic relationship matrix, was estimated using the genotype data. The average information restricted maximum likelihood (AIREML) method as implemented in GCTA bivariate analysis [] was used to carry out the estimates of the genetic correlations. […]

Pipeline specifications

Software tools OpenMx, GCTA
Applications Miscellaneous, GWAS
Organisms Homo sapiens