J. Illumina abundance summary file. Distribution of microbiota from raw Illumina file. (CSV 88Â kb)

All_bacteria_Subsystems_DESeq_results. This Excel spreadsheet contains the differential expression by SEED Subsystem hierarchies between ICD and control samples for...

16s rRNA

This is an R object (.rds file) containing the taxonomic information for all possible OTUs detected in this dataset. These are the GreenGenes 13_8 97% reference OTUs.

Table S4. All correlations between OTUs determined by SparCC. Correlations within each sample type are listed in separate sheets. This includes correlations between all possible...

Additional file 8: Table S5. Pairwise PERMANOVA tests for beta diversity differences among fish families or tribes, for raw swab bacterial communities and corrected skin...

Table S9. Summary of upregulated gene ontology (GO) term categories. (XLSX 13 kb)

Table S2. Table describing the taxonomy of RSVs identified by sLDA analysis. (XLSX 10 kb)

Supplementary Table S3 - OTU table with raw read counts. (XLSX 46 kb)

This file is a tab-delimited text file of all TCGA read pairs and their corresponding metadata and bacterial taxonomic assignments. Comments are denoted by a #. Abbreviations...

H. Illumina abundance summary file. Distribution of microbiota from raw Illumina file. (CSV 106Â kb)

Output describing the code used for microbiota analysis. (HTML 3490 kb)

The Netlogo model of BV transmission. (NLOGO 30 kb)

F. Illumina abundance summary file. Distribution of microbiota from raw Illumina file. (CSV 101Â kb)

16s rRNA

O. Illumina abundance summary file. Distribution of microbiota from raw Illumina file. (CSV 95 kb)

Tables of proportional abundance of different genera in the different donor groups. (XLSX 18 kb)

16s rRNA

De novo and rarefy analysis. Contains a table that compares results from the generalized estimating equation (GEE) analysis performed in the paper (using closed-reference OTU...

Table S2. Full clinical data for all patients included in this study. (XLSX 14 kb)