Fig. 2

HDC and correlated species and metabolic functions contribute significantly to patient stratification in LODO analysis in CRC. a, Predictive performances as AUC values obtained using LODO analysis by training the models on the species abundances. The AUC values were averaged from repeated results of 10-fold validation analysis. The labels of y-axis mean the features used for building models. Dif-species: species whose abundances are significantly different between CRC and controls in at least two datasets (Wilcoxon Rank Sum Test, see Methods); HDC-species: HDC-correlated species in at least two datasets; see Methods for details. All-species: the overall species. b, AUC values obtained using LODO analysis by training the models on the metabolic pathway abundances. The labels of y-axis mean the features used for building models. Dif-pathways: pathways whose abundances are significantly different between CRC and controls in at least two datasets (Wilcoxon Rank Sum Test, see Methods); HDC-pathways: HDC-correlated pathways; see Methods for details. All-pathways: the overall pathways. c-d, Ranking of feature importance in the HDC + All-species model c and HDC + All-pathways model d. The models were trained by using HDC values and relative abundances of all species/pathways as input. The importance scores were reported by the LODO models. The features were ranked according to the median importance scores from 100 repeated results of 10-fold cross-validation analysis. Dif: species/pathways whose abundances are significantly different between CRC and controls in at least two datasets (see Methods); HDC-related: species/pathways correlated with HDC in at least two datasets (see Methods); Both: differential species/pathways that was also correlated with HDC; HDC: host DNA contents; Other: species/pathways that were neither HDC-related nor differential