Additional file 2.
Host sRNA Profile Summary Tables. Summary data categorized by mapped read orientation and sRNA size group. 'Summary' page shows total sRNA reads in pooled libraries for each condition tested. ''Transcripts' shows the number of targets remaining after removing low-abundance (<10 reads) and flagged candidates. "Flagged" segments are those for which a replicate accounted for 70% or more of the total reads; these were deleted from the final analysis. 'Enriched' and 'Depleted' indicate the number of targets showing significant changes in DENV2-infected pools over controls. Significance was determined using the edgeR exact test, and a Benjamini-Hochberg cut-off of 0.05 was used to adjust for multiple testing and control the false discovery rate. The following pages list raw sRNA count data for each target transcript at 2, 4, or 9 dpi. 'DayX sense' shows differential enrichment data for host sense strand sRNAs across all libraries collected at X dpi. Other pages show similar sRNA profiles for anti-sense and sense strand sRNA reads at the indicated collection time. 'Category', indicates target functional category described in Figure 3 legend. 'logFC', log2 fold change in DENV-infected versus control for all sRNAs; 'F_pval', p value of exact test, 'F_FDR', FDR for summed sRNAs. Day2 ncRNA Table shows unique tRNAs represented in the enriched sRNA profiles at 2 and 4 dpi. qRT-PCR Primers Table shows primers used in analysis shown in Figure 3F.
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Hess et al. BMC Microbiology 2011 11:45 doi:10.1186/1471-2180-11-45