Figure 1.

Gut microbiota in cases and controls. A, Overall study schema. Abbreviations: AML, acute myeloid leukemia; HCT, hematopoietic cell transplantation; MSKCC, Memorial Sloan Kettering Cancer Center; UMN, University of Minnesota. B, Alpha diversity. as measured by the Shannon index. The difference between each case and their matched control was used to generate the plot. The horizontal line in the middle represents the median and the box the interquartile range; the whiskers extend to the last data value that is still within 1.5 times the interquartile range from the lower or upper quartile. C, Genus-level difference in centered log-ratio (Δclr) abundance between cases and their matched controls. The y-axis shows median values (with interquartile ranges). Red and blue represent genera that were significantly more abundant in controls or cases, respectively. Significance is shown by one (P < .05) or two (P < .01) asterisks. No formal differential abundance analysis was performed in this plot. D–G, ALDEx2 results with a 1-day (D, E) versus 2-day (F, G) window interval between the stool sample and subsequent neutropenic fever (cases) or no neutropenic fever (controls). Differentially abundant genera (q < 0.10 in aldex.ttest) are shown in red.