Fig. 3: Application of SIFT-seq to urine.
From: A metagenomic DNA sequencing assay that is robust against environmental DNA contamination
a Heatmap of abundance of species (molecules per million, MPM, species with at least one read detected by BLAST) identified in patients with and without urine culture-confirmed UTIs, before and after application of SIFT-seq filter (black * indicates agreement with urine culture). b Boxplot of the relative number of microbe-derived molecules (MPM) in samples from patients with and without urine culture-confirmed UTIs, before and after SIFT-seq filtering. c (i) Sample collection timepoints after transplantation for 5 patients. (ii) Boxplot showing Bray–Curtis similarity index (as defined in c (i)) of the urine microbiome within individual patients and between patients before and after stent removal. Boxes in the boxplots indicates 25th and 75th percentile, the band in the box indicated the median and whiskers extend to 1.5 × Interquartile Range (IQR) of the hinge. Outliers (beyond 1.5 × IQR) are plotted individually. (* p value < 0.05, ** p value < 0.01,*** p value < 0.001). Source data for (a–c(ii)) are provided as a source data file.
