FIG 1.

There is a difference in the microbiome between tumor and normal tissues. We found a global pattern separating tumor and normal tissue, which can be seen in CTF ordination space. (A) Plotting the change between normal and tumor tissue in PC 2 and PC 3 as a vector with normal tissue as the center demonstrates a clear directional pattern. The difference between normal and tumor tissue can also be observed along individual components: PC 1 (B), PC 2 (C), and PC 3 (D). Ticks and dashed zero-lines along PC 2 (C) and PC 3 (D) match the two-dimensional axes in panel A. All boxplots are shown with a Cohen’s d effect size statistic for a one-sided t test and P values from a permutative one sample t test, with 999 permutations. (E) Differential ranking of 300 abundant features identified normal tissue-associated features (light pink) and tumor tissue-associated features (dark pink). The inset shows selected features in each group, colored by family; colors are defined in the legend. (F) Change in the ALR between normal and tumor tissue. The coefficient from a linear mixed-effect model comparing the change based on tissue type was determined.