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Moreover, Egas integrates on-demand configuration of the annotation task, namely annotators, concepts, relations and general annotation guidelines.
Note that only effects on the annotated R-genes were obtained as no general annotation of the improved reference was available.
We identify a gene as a transcriptional regulator (R) if it is annotated with GO term "regulation of biological process" in the general annotation, whereas any other class of proteins (X are treated separately.
Thus, we also measure the precision at different levels of the recall for assessing the general annotation performance.
Low scoring nodes (see Fig. 1- iii) do not contribute to the general annotation path and reduce the computational efficiency.
To solve this problem, we can trace back one or two steps to get more general annotation.
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We propose general annotations for these 1,568 previously unannotated genes (Table S5).
Furthermore, selecting specific classes as training classes resulted in the loss of some general annotations.
In general, annotation-based metrics appear to reflect assembly quality best when computed over contigs, while basic assembly and sequence statistics should always include singletons.
However, these databases only contain general annotations for the soybean genome, instead of knowledge specifically targeting the transcription factors.
We used functional annotations[ 33, 34] for the top tier of the annotation tree (except sub-cellular localization and general annotations such as "protein with binding function").
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