If an observation has a missing value for any variable used in the independent effects, then the analyses of all dependent variables omit this observation. An observation is deleted from the analysis of a given dependent variable if the observation’s value for that dependent variable is missing. Note that a missing value in one dependent variable does not eliminate an observation from the analysis of the other dependent variables.

During processing, PROC VARCOMP groups the dependent variables on their missing values across observations so that sums of squares and crossproducts can be computed in the most efficient manner.