Table 5 Genera with the most contribution on model predictions according to SHAP analysis for each cancer type (in descending order of contribution). Corresponding SHAP scores are provided for each feature.
From: Machine learning-based approaches for cancer prediction using microbiome data
Overall | Correct predictions | Incorrect predictions | ||||
|---|---|---|---|---|---|---|
COAD | Porphyromonas | (0.099) | Porphyromonas | (0.216) | Porphyromonas | (2.005) |
Granulicatella | (0.031) | Akkermansia | (0.033) | Akkermansia | (0.289) | |
Bacteroides | (0.025) | Granulicatella | (0.031) | Barnesiella | (0.202) | |
Solobacterium | (0.021) | Streptococcus | (0.029) | Parabacteroides | (0.115) | |
Fusobacterium | (0.020) | Alistipes | (0.024) | Ruminococcus | (0.072) | |
READ | Porphyromonas | (0.294) | Porphyromonas | (0.965) | Porphyromonas | (0.209) |
Granulicatella | (0.117) | Granulicatella | (0.293) | Parvimonas | (0.156) | |
Streptococcus | (0.070) | Streptococcus | (0.139) | Bacteroides | (0.035) | |
Solobacterium | (0.042) | Solobacterium | (0.131) | Akkermansia | (0.022) | |
Parabacteroides | (0.031) | Campylobacter | (0.111) | Sutterella | (0.022) | |
HNSC | Helicobacter | (0.236) | Helicobacter | (0.230) | Leptotrichia | (0.020) |
Lactobacillus | (0.044) | Lactobacillus | (0.040) | Alloprevotella | (0.011) | |
Fusobacterium | (0.011) | Fusobacterium | (0.013) | Acinetobacter | (0.009) | |
Leptotrichia | (0.006) | Alloprevotella | (0.005) | Prevotella | (0.008) | |
Alloprevotella | (0.005) | Clostridium | (0.005) | Abiotrophia | (0.008) | |
STAD | Helicobacter | (0.336) | Helicobacter | (0.433) | Helicobacter | (0.072) |
Lactobacillus | (0.042) | Capnocytophaga | (0.019) | Prevotella | (0.020) | |
Veillonella | (0.017) | Lactobacillus | (0.013) | Clostridium | (0.013) | |
Fusobacterium | (0.012) | Clostridium | (0.009) | Capnocytophaga | (0.012) | |
Prevotella | (0.012) | Fusobacterium | (0.009) | Actinomyces | (0.009) | |
ESCA | Helicobacter | (0.131) | Helicobacter | (0.203) | Lactobacillus | (0.066) |
Streptococcus | (0.042) | Lactobacillus | (0.097) | Streptococcus | (0.055) | |
Prevotella | (0.031) | Acinetobacter | (0.034) | Prevotella | (0.038) | |
Lactobacillus | (0.030) | Capnocytophaga | (0.018) | Atopobium | (0.026) | |
Aloprevotella | (0.022) | Prevotella | (0.009) | Abiotrophia | (0.011) |
