Fig 1.
Venn diagram depicting the overlap of detected mRNAs in this study (Osman et al.) with that of Londin et al. [17] are shown.
Genes detected above the threshold >1/10,000 of ß-actin expression (this study) or ≥1/10,000 of ß-actin expression (Londin et al.) were compared.
Fig 2.
Venn diagrams showing overlap of the top 100 platelet mRNAs in the different platelet groups.
a) All groups except Intercept, b) All groups except Mirasol.
Fig 3.
Hierarchical clustering of the five experimental groups with 20,803 mRNAs, analyzed by Spearman rank correlation and average linkage.
CTRL = Control; IRRAD = Irradiated; SSP+ = SSP+; MIRAS = Mirasol; INTER = Intercept.
Fig 4.
The adjusted p-values (padj) obtained from DESeq-analysis and corresponding frequencies of platelet mRNAs upon treatment for pathogen reduction.
Differential platelet mRNA expression was calculated relative to the control group.
Table 1.
Functional annotation clusters generated by DAVID tools for the most significant (padj<0.05) differentially expressed (FC≥2) mRNAs in platelets treated with the Intercept pathogen reduction system.
Fig 5.
The fold changes (in log2) relative to the control group and the corresponding adjusted p-values (padj) are depicted for the pathogen reduction treatment groups.
Blue and red horizontal dotted lines indicate padj thresholds at 0.05 and 0.001, respectively.
Table 2.
Thirteen (13) platelet mRNAs that were found to be downregulated by more than 4 fold (p-value < 0.001) upon treatment with Intercept, ranked in order of DE significance by padj values.
Table 3.
Inverse miRNA-mRNA correlations found in platelets treated with Intercept.
Genes differentially overexpressed at p < 0.01 were included in the analysis. All correlations were statistically significant at p < 0.05.
Table 4.
Positive miRNA-mRNA correlations found in platelets treated with Intercept.
Genes differentially downregulated at p < 0.01 were included in the analysis. All correlations were statistically significant at p < 0.05.
Fig 6.
Positive correlations of miRNA-mRNA (a–b) and miRNA-miRNA (c) pairs in platelet concentrates (PCs) treated with different pathogen reduction systems and the control.
Correlations are shown between miR-484 and ABHD16A (a), miR-24 and ABHD16A (b) and between miR-24 and miR-484 (c). On the x-axis, the relative expression of each miRNA is shown, whereas the normalized expression of mRNA is shown on the y-axis: mRNA-expression = (number of reads/(1/10,000 of ACTB reads)*100. R-squared (r2) and regression significance (p) are shown above the trend line. Position of each platelet group is shown above the diagram: 1 = Intercept; 2 = Irradiated; 3 = Mirasol; 4 = SSP+; 5 = Control.
Fig 7.
A miRNA-mRNA network illustrating the interactions between downregulated mRNAs (p<0.01) and miRNAs (p<0.05) in platelets treated with Intercept.
The interaction network was constructed by combining miRNA target prediction using MiRanda and PITA tools with experimentally measured expression levels of mRNAs and miRNAs in the same samples.