Human gut mobileome during antibiotic therapy. A trajectory-based approach to analysis of the metagenomic time-series datasets

Abstract

Figure S1: Number of reads per sample for both sequencing runs and particpants. The darker colors denote numbers of reads used for assembly. Table S1: Mean decrease in accuracy for RF. Red and orange denote the highest and second highest values respectively within the variant. Phageome Microbiome Feature A B A B Number of MyRast functional genes 26.5 ±2 26.2 ±2 26.9 ±1 15.9 ±1 Scaffolds' GC-content 15.0 ±2 23.3 ±2 16.9 ±2 29.6 ±1 Scaffolds' length 11.9 ±1 14.3 ±1 15.8 ± 1 20.7 ±1 Number of CRISPR spacers 13.4 ±2 12.6 ±1 10.5 ±1 4.5 ±1 Number of viral genes (MyRast) 10.0 ±2 6.0 ±1 2.4 ±1 5.3 ±1 Portion of genes with unknown function 5.0 ±1 6.2 ±1 4.7 ±1 2.2 Number of viral genes (Phaster) 6.4±1 4.4 ±1 0.0 0.0 ACLAME classification (vir) 4.3 ±1 1.0 0.0 0.0 ACLAME classification (proph) 1.8 ±1 0.0 0.0 0.0 ACLAME classification (plasmid) 0.9 0.4 0.0 0.0 Predicted gene coverage 0.0 0.0 6.3 ±1 5.0 ±1 Number of predicted genes 0.0 0.0 5.5 ±1 5.9 ±1 Portion of reverse oriented ORFs 0.0 0.0 1.9 ±1 2.9 ±1 Portion of the overlapping genes 0.0 0.0 2.2 1.05