For each metabolite, we verified the existing annotations and attempted to fill in missing annotations of the remaining four input types.
For 72 of the 266 genes with missing annotations, we could obtain annotations from version 7.0 (Additional file 2: Table S2) and one gene was marked as obsolete.
In this section, we compare two methods that can handle missing annotations in the labels: binary relevance and classifiers chains.
By inferring new gene-disease associations through phenotype semantic similarity search and cross-ontology bridges, OVA attempts to deduce missing annotations, enabling gene prioritization for new and rare human diseases and supplementing the functional profile of better characterized phenotypes.
While SGD prioritizes addition of novel or missing annotations, other groups may find that annotation refinement is helpful, depending on their annotation philosophy.
25 out of the 50 articles analyzed had no missing annotations.
The CHEMDNER corpus currently is only concerned with chemistry-related information, missing annotation of linguistic aspects, syntactic and grammatical information.
As with the 'unknown' class, for which any improvement is through replacement of the 'unknown' annotation with a more informative annotation, we place a high priority on curation of those gene sets where addition of a missing annotation is required.
Second, there may be missing annotation or ambiguity in the annotation for some publications.
Manual inspection of the conflicting annotations showed that the main source of discrepancies were missed annotations by either one or the other annotator and not true annotation errors or differences in the mention boundary definition.
