It was interesting to find that the four classifiers: PCA-LDA, SVM, PCA-SVM, and ICA-SVM had equivalent performance under the two types of cross validations for this trinary data.
The order of the two types of trinary trials (with Dy or with Ds) was randomized to control for the presentation order of the decoys.
The trinary scores for all genes for each strain were further analyzed with GeneSpring microarray analysis software version 7.3 (Agilent Technologies, Santa Clara, CA) and subjected to average-linkage hierarchical clustering with the standard correlation and bootstrapping.
The practical effectiveness of the proposed algorithm is demonstrated on a test problem consisting in determination of the concentrations of components of trinary oil mixtures.
Next, we reduced the 61 × 9 tables to 3 × 1 tables of trinary values (+, −, and 0), as we explain below.
To use the switching property of the SOA MZI structure, two bits per digit binary encoding for each of the trinary MSD digits are used.
Using the trinary score for present, absent or divergent genes, 17.8% (314 of 1757) of the genes were absent or highly divergent in at least one South African strain when compared to the genome strains represented on the microarray (Figure 3).
By using our trinary score for genes present, absent or divergent in sequence (see Materials and Methods), no distinct features in the CJIE1 element were observed for any of the HS∶41 South African strains from GBS patients when compared to strains from enteritis patients (Figure 4).
The trinary CDS scores for all strains were analyzed further with GeneSpring microarray analysis software version 7.3 (Agilent Technologies, Redwood City, CA) and subjected to average-linkage hierarchical clustering with the standard correlation and bootstrapping.
The status for all genes was converted into trinary scores (present = 2; divergent = 1; highly divergent or absent = 0).
