TABLE 1.

22 studies used for global sRNA expression analysis^a

Study	GEO project title	SRA ID	Total no. of datasets	Total no. of datasets used in this study	Reference
001	Response of nor and nos contributes to Staphylococcus aureus virulence and metabolism	SRP144815	30	30	NA
002	Characterization of the LFR Genomic Islet in Staphylococcus aureus CC30	SRP077878	14	14	NA
003	Changes in relative transcript amounts resulting from hydrogen sulfide treatment, calprotectin treatment, and deletion of CstR in Staphylococcus aureus	SRP108274	18	18	19
004	RNASeq analysis of untreated versus treated	SRP166268	6	6	20
005	A master virulence regulator of S. aureus inactivated during carriage in man	SRP056736	12	12	21
006	RNA-Seq-mediated transcriptome analysis of Staphylococcus aureus Newman wild-type, walKD119A, walKV149A and DHBP-treated wild-type strains	SRP067051	8	8	22
007	The conserved regulatory RNA RsaE down-regulates the arginine degradation pathway in Staphylococcus aureus [ssRNA-Seq]	SRP123506	10	10	23
008	Changes in relative transcript amounts caused by treatment of streptozotocin and floxuridine in S. aureus USA300	SRP118369	9	9	24
009	Effects of fosfomycin on biofilm of a clinical Staphylococcus aureus isolated from osteoarticular infection by transcriptomal approach	SRP076463	12	12	7
010	Linoleic Acid Stimulation of WT Staphylococcus aureus USA300 NRS384	SRP114855	6	6	25
011	RNA-Seq of Wildtype Staphylococcus aureus USA300 NRS384	SRP114862	6	6	25
012	RNA-Seq based comparison of Staphylococcus aureus strains resistant and sensitive to MT02	SRP090765	4	4	26
013	The Staphylococcus aureus α-Acetolactate Synthase ALS Confers Resistance to Nitrosative Stress	SRP108521	4	4	27
014	Response to low-level phage predation in Staphylococcus aureus biofilms	SRP090939	6	6	28
015	Phenotype and RNA-Seq-Based Transcriptome Profiling of Staphylococcus aureus biofilms in response to Tea tree oil	SRP082322	4	4	NA
016	Comparative virulence studies and transcriptome analysis of Staphylococcus aureus strains isolated from animals	SRP070956	4	4	29
017	Decay-initiating endoribonucleolytic cleavage by RNase Y is kept under tight control via sequence preference and sub-cellular localisation	SRP058261	24	4	30
018	Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and △Rsp MRSA Transcriptomes	SRP056619	4	4	31
019	RNA-SEQ Reveals Changes in the Staphylococcus aureus Transcriptome following blue light illumination	SRP048638	4	4	32
020	The C-terminal region of the RNA helicase CshA is required for the interaction with the degradosome and turnover of bulk RNA in the opportunistic pathogen Staphylococcus aureus	SRP058249	24	6	11
021	SaeRS-dependent inhibition of biofilm formation in Staphylococcus aureus Newman	SRP053597	10	10	33
022	Steady-state hydrogen peroxide induces glycolysis via metabolic reroute in P. aeruginosa and S. aureus	SRP039358	8	4	34

^aDHBP, 2,4-dihydroxybenzophenone; ID, identifier; NA, not applicable; MRSA, methicillin-resistant Staphylococcus aureus; nor, nitric oxide reductase gene; nos, nitric oxide synthase gene; ssRNA, single-stranded RNA; WT, wild type.