Table S14. The paired viral-microbial metagenomic data from Tara Oceans samples used in this study. (XLSX 47 KB) (XLSX 40 kb)

Patient metadata. Breakdown of all metadata fields collected and summary of genetic results. Includes antibiotics administered to patient during the study period. (XLSX 36 kb)

Table S10. The number of identified phage contigs for each sample in the independent cohort of humans treated with antibiotics. (XLSX 42 KB) (XLSX 41 kb)

Primers used for BCG Russia 368 genome gaps closure by PCR and Sanger sequencing. (XLSX 14Â kb)

Table S11. The list of 122 KO groups and 118 Pfam groups found significantly different (Wilcoxon rank-sum test, p < 0.05) exposed 0 vs exposed 7 using VirMiner. (XLSX...

Antibiotic resistance phenotypes. Table of phenotypic antibiotic results for the initial infection isolates. (CSV 8 kb)

Localization and description of mutation in BCG Russia 368 genome vs. BCG Tokyo 172. (XLSX 17 kb)

Background The control of genome stability is relevant for the worldwide BCG vaccine preventing the acute forms of childhood tuberculosis. BCG sub-strains whole genome...

Background A rapidly increasing flow of genomic data requires the development of efficient methods for obtaining its compact representation. Feature extraction facilitates...

Table S18. The summary of quality control statistics in the Tara Oceans metagenomic samples and human gut samples that were used for the VirMiner training dataset. (XLSX...

Table S1. Sample information of human gut microbial metagenomic data and matched phageomes used in the RF training and evaluation dataset. (XLSX 43 KB) (XLSX 42 kb)

Table S12. The predicted phage-host interactions in the independent cohort of humans treated with antibiotics at species level. (XLSX 52 KB) (XLSX 40 kb)