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Finally, considering each species separately, redundant predictions are identified.
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These phenotypes were compared to model predicted phenotypes, and the model false positive and false negative predictions were identified.
Deviation of the data from these model predictions was identified as observation error.
Optimal formulations based on ANN and MLR predictions were identified by minimizing the standardized Euclidian distance between measured and theoretical (zero order) release parameters.
Protein predictions were identified using PROSITE (http://expasy.hcuge.ch/sprot/prosite.html) and SignalP (http://genome.cbs.dtu.dk/services/SignalP).dtu.dk/services/SignalP
In total 119 genes with incorrect intron predictions were identified (Additional file 5).
Additional members that were not included in the automatic protein family predictions were identified by tblastn searches as described above.
However two missense variants with suggestive in silico predictions were identified (Table 5) that warrant further functional analyses.
For the visual opsin gene family, gene predictions were identified through Ensembl's gene tree function [ 62] searches since the OPN genes are spread among several Ensembl protein family predictions.
The false positive and false negative predictions were identified by comparison to the experimental dataset, and the number of false negatives eliminated and new false positives created by each SMILEY solution could be counted.
Papers validating an existing mapping algorithm or developing tools to estimate predictions were identified and linked to the source study in the online database but were not counted as separate studies unless they also estimated new mapping models not reported previously.
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