Overall, the hub classifier built on the Gene Ontology annotations achieved high specificity and NPV, but had lower than expected sensitivity and PPV.
RE ANNOTATE's predictions in the three layers of re-annotation achieved excellent accuracy relative to manual annotation, with results shown in Table 2 (see Implementation for calculation).
Comparison of our data with those from three other recent P. infestans studies [ 29– 3149150] 150] exemplifies the variation in CAZyme annotation achieved following different approaches.
The extent of coverage and annotation achieved and confirmation of expression, show that transcriptome sequencing provides useful information for ecological model systems that have historically lacked genomic tools.
As shown in Figure 3, the overall functional annotation achieved in the case of some example bacterial metagenomes is 50 75%, with the remaining sequences being unannotated.
Thanks to the detailed FHIT mapping and annotation achieved in this work, insights into the relation between the presence and activation state of BPV and tumors might come from the study of integration of BPV at the FHIT locus.
Comparison of our P. infestans data with those from the other P. infestans studies exemplify the variation in CAZyme annotation achieved following different approaches and conducted at different times.
Using a metric that allows for overlapping annotations, we achieved machine-annotator agreements of 88.9% for phrase recognition and 91.9% for phrase-type identification (Action names).
Also, we can see that more annotations beyond 5000 10000 sentences are subject to diminishing returns, i.e. it takes an increasing number of annotations to achieve the same amount of relative improvements, the more annotations are used for training.
