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Of the 17,781 predicted interactions, there are 3,143 high-confidence predictions (predicted by ME [ 40] or at least two different approaches), 729 medium-confidence predictions (hetero-domain interactions in which both domains have the same annotations in the biological process of the gene ontology), and 13,909 remaining low-confidence predictions [ 23].
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Note that the following predictions were predicted by one of the Tumblr guys; I'm sure he's a nice fellow.
Furthermore, while combining prediction results predicted by ProteRNASVM and ProteRNAWildSpan, ProteRNAWildSpan detected additional RNA-binding residues that ProteRNASVM didn't predict.
Since each of these tools use different methods for ortholog prediction, orthologs predicted by more than one method are more likely to be accurately predicted.
We calculated the excess of prediction (area predicted by lumped model - area predicted by superposed split models) for each lineage pair and investigated whether the combined ecological niche model predicts more suitable area than the superposed split models.
To get a better gene prediction, genes predicted by GeneScan and GeneMark.hmm, and/or sequences having similarities to soybean ESTs were further analyzed by different NCBI Blast programs and sequence alignment programs.
The amino-acids-plus-properties models provided slightly more true-positive predictions (predicted cleavage sites that were confirmed by empirical data) but slightly more false-positive predictions (predicted cleavages sites that have not yet been reported) than the amino-acids-only models.
To overcome the limitations in PSORTb, PA and ProtCompB, the predictions for proteins predicted by only one or two out of the three prediction methods (the non consensus vote) were refined by homology-based search using the DBSubloc database and structural annotation in GTD.
Figure 5 Compounds predicted to interact with DHFR by the target prediction algorithm, and predicted by the PCM model to have a pIC50 value higher than 7 pIC50 units.
NRPS/PKS prediction: NRPSs were predicted by searching the genome for Pfam domains that correspond to the conserved AMP-binding enzyme, condensation domain, and phosphopantetheine attachment sites.
This result suggests BOLD signals in ventral striatum (putamen) can be predicted by prediction errors (PE) when action-reward dependencies vary slowly through time where PE fluctuates around 0 (Table 1, Figure 3), but not in phases where subject's behavior becomes more variable and is less dependent on previous experience.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com