Figure 2.

Gene expression of cervical neutrophils (N = 10). (A) Principal component analysis (PCA) of the transcriptional profile of cervical neutrophils. Cluster 1 has a membership size of 7 and Clusters 2–4 are composed of one woman each. (B) Pearson’s pairwise correlations were calculated between all samples with a cluster dendrogram showing the hierarchical clustering between samples. (C) Volcano plot of differential gene expression of samples in Cluster 1 versus samples in Clusters 2–4. The 127 significantly upregulated genes (fold change ≥ 1.5, FDR < 0.05) are shown in red and the 73 significantly downregulated genes (fold change ≤ −1.5, FDR < 0.05) are shown in blue. The top ten upregulated and top ten downregulated genes are labelled. (D) GO analysis of the differentially expressed genes between samples in Cluster 1 versus samples in Clusters 2–4. Selected GO terms which were significantly upregulated in Cluster 1 are shown. (E) IPA network analysis of differentially expressed genes of samples in Cluster 1 versus Clusters 2–4. Statistically significantly differentially expressed genes (fold change ≥ |1.5|, value of p < 0.05) which are upregulated or downregulated in Cluster 1 are shown in red and green, respectively. Orange indicates predicted activation and blue indicated predicted downregulation of genes and pathways. Solid lines indicate direct pathway, whilst dotted lines indicate indirect pathways. ^† Atopobium vaginae is also known as Fannyhessea vaginae as per new nomenclature.