Overview
This web-page provides access to the supplementary tables in Microsoft Excel format that are referred to in the Supporting Information of our publication "Staphylococcus aureus transcriptome architecture: from laboratory to infection-mimicking conditions" (Mäder, Nicolas et al., submitted).
We also reference in the second section the other links related to this data set.
Throughout this document we refer to our S. aureus HG001 as the wild-type. This strain is a close derivative of the widely used model strain S. aureus NCTC 8325 and we use the corresponding Genbank record (CP000253) as the reference sequence and annotation.
1. Supporting tables
| Table | Link | Description |
|---|---|---|
| Table A | in SOM text | Oligonucleotides used for preparation of Northern blot probes |
| Table B | in SOM text | Comparison of potential trans-encoded small regulatory RNAs with sRNAs identified by previous studies |
| Table C | in SOM text | Known 5’ cis-acting regions of S. aureus |
| Table D | in SOM text | Results from previous transcriptome studies in comparison with the SigB regulon revealed by the promoter classification |
| Table E | in SOM text | Target prediction for the potential sRNA S596 |
| Table S1 | MS Excel file | Expression levels for all annotated genes and new RNA features in the 156 RNA samples |
| Table S2 | MS Excel file | Least and most expressed genes in all conditions |
| Table S3 | MS Excel file | Correlation coefficients and loadings associated with PCA axes 1-15 |
| Table S4 | MS Excel file | Differential expression analysis of infection-mimicking and antibiotic conditions |
| Table S5 | MS Excel file | List of promoter up-shifts with cluster information and TU definition |
| Table S6 | MS Excel file | Information summary for each annotated gene and new RNA feature |
| Table S7 | MS Excel file | List of high confidence down-shifts and effects of rho deletion at termination sites |
| Table S8 | MS Excel file | List of promoter up-shifts with transcription factor binding site information |
| Table S9 | MS Excel file | Transcription factor regulons including previously known and newly identified potential target genes. | Table S10 | MS Excel file | List of up-regulated regions in the Δrho mutant |
| Table S11 | MS Excel file | List of genes showing differential expression in the Δrho mutant compared to the wild-type |
2. Other links
Supporting Figure
Figure S1: Barplots of expression profiles of 47 virulence-associated genes (PDF).Transcriptome browser
Transcriptome profiles for the wild-type and the rho-mutant can be browsed here.
GEO records
| Link | Description | Reviewer link |
|---|---|---|
| GSE70043 | The GEO SuperSeries grouping all the tiling array data of this study; composed of the SubSeries GSE70040, GSE70041 and GSE70042 |
For review |
| GSE70040 | Data from the 156 tiling array mRNA measurements of the wild-type strain | For review |
| GSE70041 | Data from the 16 tiling array mRNA measurements to assess the role of Rho | For review |
| GSE70042 | Data from the 4 tiling array genomic DNA hybridizations to assess probe affinity | For review |