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We found that one of these novel targets PAK3, was predicted by the prediction algorithm miRanda [ 40], which takes into account non-canonical seed interactions.
However, the majority of Phosphorylation sites predicted with a higher score by the prediction algorithm is present on N-terminal and C-terminal regions.
The predicted pre-miRNAs resemble known miRNAs in several aspects that were not considered by the prediction algorithm.
For the mutagenicity endpoint, only structural hypothesis were used; in future work, other important hypothesis types like physico-chemical or pharmacophoric hypotheses will be added to show how different kinds of knowledge units can be used by the prediction algorithm to build transparent and elegant conclusions.
These hairpins are more similar to known miRNAs than to negative controls in several aspects not considered by the prediction algorithm.
These results may indicate that enhancement of the affinity of antigen presentation by the prediction algorithm increased the immunogenicity of the CEA-SARS peptide.
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The clusters of proteins are listed and the sequences are displayed using the unique identifiers that were assigned by the prediction algorithms.
A series of buttons allow the user to select for the wild-type or the appropriate mutation to be considered by the prediction algorithms.
We think the discrepancies arise from false assignments generated by the prediction algorithms used, which can be identified by comparison with proteins for which there are reliable experimental data of localization (see Additional file 6) [ 2- 14, 53- 57].
Below, we outline our reasons for choosing the direct method followed by a detailed description of the prediction algorithm we used for our predictions.
In this way, by comparing the significance of the prediction algorithm in different network structures it is possible to find the most significant result among the tested networks.
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by the prediction module
by the selection algorithm
by the prediction tool
by the prediction equation
by the prediction risk
by the optimization algorithm
by the prediction step
by the prediction error
by the prediction task
by the pharma algorithm
by the prediction approach
by the prediction matching
by the prediction pipeline
by the prediction technique
by the RepeatMasker algorithm
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