Figure 1.
Outline of iterative filtering process.
Analysis pipeline to select and quality control GEO datasets linked to respiratory virus mRNA expression. Specific inclusion criteria are described in the Materials and Methods.
Table 1.
Profiles of GEO datasets passing all criteria filters.
Figure 2.
Example of quality analysis for subset of GSE17156: RSV treatment and control groups.
Kernel density plot a) before and b) after removal of samples GSM429279 and GSM429252: blue lines indicate baseline samples, green lines indicate RSV peak symptom samples (∼141 hours); PCA plot c) before and d) after removal of samples GSM429279 and GSM429252 :blue circles indicate control (baseline) samples, green circles indicate RSV peak symptom samples (∼141 hours). Ellipse represents Hotelling T2 alpha threshold of 0.05. Eigenvalues for panel c components 1 and 2 are, respectively, 119335.7 and 50356.11. Eigenvalues for panel d components 1 and 2 are, respectively, 86014.46 and 50705.63.
Figure 3.
Parkin-Ubiquitin Proteasomal System pathway with viral frequency.
Viral frequencies superimposed for each of most frequently differentially expressed proteins, where red circles are differential expression of genes by 7 viruses, orange circles are differential expression of genes by at least 6 viruses, and blue circles are differential expression of genes by 5 viruses. See MetaCore website at http://www.genego.com/pdf/MC_legend.pdf for figure legend and Table S4 for pathway map gene products' corresponding HUGO gene names.
Table 2.
Top twenty pathways with highly expressed gene percentages and names.
Table 3.
Normalized viral expression and pathway inclusion grid for genes with viral frequency ≥6.
Table 4.
Putative targets with associated drugs.