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We also evaluated alignment quality: the alignment sensitivity and precision of matrices and methods.
We also evaluated the alignment quality of matrices and methods, which revealed that MIQS shows higher alignment sensitivity than that with the existing matrix series and CS-BLAST.
We compared the number of true positive relations detected at the number of false positives as 50 with MIQS and the other matrices and methods.
In terms of alignment precision, MIQS.SCOP40-v and CS-BLAST are superior to other matrices and methods in the entire range.
In addition to this, we compared the number of true positive superfamilies detected with MIQS and the other matrices and methods.
Furthermore, we evaluated the detection performance of the matrices and methods against another test dataset, CATH20-SCOP, to ensure the independence of the dataset from the training set (Fig. 3C).
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The PCA was performed using a covariance matrix and method of eigenvector scaling was normalized.
Based on the pH adaptation nature of the keratinase, the column matrix and method of purification can be desired while varying the elution profile.
To compare and evaluate the performance of matrices (and also methods), ROC50 was used as in previous reports (Lee et al., 2008; Schaffer et al., 2001).
Existing methods are classified into two main groups: matrix methods which use directly the measured FRF matrix, and modal methods which use modal parameters deduced from the FRFs.
Hierarchical bi-clustering was applied to determine clusters in these matrices (see Materials and Methods for details).
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