
Uses, misuses, and abuses in GO profiling 839
FIGURE 24.2: Different levels of abstraction in GO. The analysis can be performed at a lowest level of abstraction (purple
dash-and-dot line), at a fixed level of abstraction chosen by the use r (blue dashed line), or at a custom level of abstraction
that can go to different depths in various subtrees of the GO (red c ontinuous line). In this case, the custom cut represented
by the re d line will test the specific biological question “is apoptosis (as a whole) significantly involved in this condition”?
Note that this custom cut is not optimal from the point of view of multiple comparisons (see the disc us