Measures of performance for the initial round of GO term predictions. (a) Mean area under the receiver operating characteristic curve (AUC) within each evaluation category, evaluated using the held-out genes. Gene Ontology Biological process (GO-BP), Cellular component (GO-CC), and Molecular function (GO-MF) branches are indicated on the x-axis, grouped by specificity (indicated by the minimum number of genes in the training set associated with each GO term in a given category). Upper case letters associated with the color code correspond to submission identifier. (b) Mean AUC within each evaluation category, evaluated prospectively using newly annotated genes. (c) For each pair of submissions X and Y, we test for difference in AUC value for every GO term (evaluated using held-out genes). Color bars indicate fraction of pairwise comparisons for which X's AUC is significantly higher (blue), not significantly different (beige), and significantly lower (maroon). (d) As (c), except evaluated using the newly annotated genes. (e) The fraction of GO terms exceeding the indicated precision at 20% recall (P20R) value, evaluated using held-out genes. The black line corresponds to the fraction of GO terms for which the 'straw man' approach achieved the indicated precision. (f) As (e), except with P20R values derived prospectively from newly annotated genes.