Composition Analysis and Feature Selection of the Oral Microbiota Associated with Periodontal Disease

Table 5

Feature combinations and their predictive accuracies with different machine learning methods. Only feature combinations with more than 0.94 average accuracy are shown. DL, RF, and LR represent deep learning, random forests, and logistic regression, respectively.

Feature combination	DL	RF	SVM	LR	Average accuracy
Stomatobaculum sp._oral_taxon_373	0.967	0.973	0.960	0.933	0.958
Peptoniphilaceae sp._oral_taxon_113
Desulfobulbaceae sp._oral_taxon_041	0.933	0.960	0.973	0.947	0.953
Peptoniphilaceae sp._oral_taxon_113
Aggregatibacter actinomycetemcomitans
Lachnospiraceae sp._oral_taxon_500
Leptotrichia sp._oral_taxon_218
Stomatobaculum sp._oral_taxon_373	0.933	0.973	0.960	0.947	0.953
Streptococcus sanguinis
Aggregatibacter actinomycetemcomitans
Desulfobulbaceae sp._oral_taxon_041	0.973	0.967	0.933	0.927	0.950
Mollicutes sp._oral_taxon_906
Porphyromonas gingivalis
Aggregatibacter actinomycetemcomitans
Peptostreptococcaceae sp._oral_taxon_950
Stomatobaculum sp._oral_taxon_373	0.947	0.953	0.907	0.987	0.948
Streptococcus sanguinis
Mollicutes sp._oral_taxon_906
Porphyromonas gingivalis
Aggregatibacter actinomycetemcomitans
Stomatobaculum sp._oral_taxon_373	0.960	0.967	0.947	0.913	0.947
Peptoniphilaceae sp._oral_taxon_113
Aggregatibacter actinomycetemcomitans
Leptotrichia sp._oral_taxon_218
Desulfobulbaceae sp._oral_taxon_041	0.933	0.973	0.933	0.947	0.947
Peptoniphilaceae sp._oral_taxon_113
Aggregatibacter actinomycetemcomitans
Leptotrichia sp._oral_taxon_218
Stomatobaculum sp._oral_taxon_373	0.967	0.933	0.953	0.933	0.947
Peptoniphilaceae sp._oral_taxon_113
Mollicutes sp._oral_taxon_906
Peptoniphilaceae sp._oral_taxon_113	0.960	0.987	0.867	0.967	0.945
Streptococcus sanguinis
Aggregatibacter actinomycetemcomitans
Stomatobaculum sp._oral_taxon_373	0.920	0.947	0.967	0.947	0.945
Aggregatibacter actinomycetemcomitans
Peptostreptococcaceae sp._oral_taxon_950
Stomatobaculum sp._oral_taxon_373	0.967	0.967	0.953	0.893	0.945
Peptoniphilaceae sp._oral_taxon_113
Porphyromonas gingivalis
Aggregatibacter actinomycetemcomitans