FDR for the Golub et al.  data. The dotted line represents a cut-off that minimises the number of false positives and false negatives, summing (4) and (5) using the smoother estimate. It would make sense to consider choosing a threshold in this region. The line corresponds to the 2920th ordered p-value and a q-value of just above 0.2. All methods agree rather well. For reference the local FDR of  has been added. As expected it exceeds all others, and is caught up at zero by its FDR counterpart SEP FDR. However, they meet at a level well above other methods.