Fig. 4

Colorectal cancer biomarkers obtained with ONT-V1V9 and both databases. (A) Differential abundance analysis (DAA) through ANCOM-BC using ONT-V1V9 and SILVA. Control subjects are the reference group, meaning a higher Log Fold Change (LFC) indicates higher abundance of a taxon in the cancer group. (B) DAA through ANCOM-BC using ONT-V1V9 and Emu’s Default database. Control subjects are the reference group, meaning a higher Log Fold Change (LFC) indicates higher abundance of a taxon in the cancer group. (C) Centered Log Ratio (CLR) abundance of species with significant differences between cancer and control groups, indicated through Wilcoxon rank sum tests. (D) AUC of two models (Illumina-V3V4 or ONT-V1V9) using manually selected features based on read identity to reference, ANCOM-BC and CLR abundance. Sample size (n) refers to the number of features included in each model. A complete list of species and genera included in each combination is found in Supplementary Table 1.