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This is achieved through evaluating new predictions by comparing them to the predictions of known instances in a calibration set.
Our findings demonstrate that including signal intensity values from all duplexes on the array, which are essentially nonspecific to the target organisms, significantly improved predictions of known microbial targets.
The gene predictions of known symbiosis-related genes were manually checked.
Selenoprofiles is an homology-based method to produce accurate predictions of known selenoprotein families, and can be used in conjunction with automatic annotation pipelines.
In contrast, there are also examples of missing predictions of known short SMB gene clusters, such as those responsible for the biosynthesis of asperthecin in A. nidulans and fusaric acid in F. verticillioides (Table 1).
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Prospective experimental validation of peptides predicted to bind to previously untested HLA-I molecules, cross-validation, and retrospective prediction of known HIV immune epitopes and endogenous presented peptides, all successfully validate this method.
Target prediction of known and novel differentially expressed miRNAs.
Prediction of known miRNAs of A. thaliana and G. max validates the accuracy of our method.
The accuracy of prediction of known protein-protein interactions was compared for the two algorithms as in [ 14].
Those on the gene expression data demonstrate that it leads to improved accuracy with respect to prediction of known links, and also uncovers additional causal relationships uncaptured by earlier works.
As for MapSplice, although it gave the highest number of predictions, the fractions of known exon junctions in the prediction, which are 74.2 and 67.2%, are lower than other algorithms, indicating that there are more false positive splice junctions detected.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com