For each S. cerevisiae gene knockout, all genes involved in complexes with the deleted gene that do not participate in other complexes are also deleted.

For the four complexes shown, YEL039C knockout will result also in the deletion of YDL178W and reactions associated with it because no other YDL178W containing complex remains. In contrast, YEL071W is not deleted, because it participates in a still functional complex with YJR048W.