Figure 3 | Scientific Reports

Figure 3

From: Identification of new regulatory genes through expression pattern analysis of a global RNA-seq dataset from a Helicobacter pylori co-culture system

Figure 3

Bioinformatics pipeline utilized to analyze the RNAseq dataset and establish the differential expression patterns that lead to the identification of potential regulatory candidates. Heatmaps represent the genotype fold-change expression from the entire time-course (0–720 min post challenge) from each gene in the NLR and PPAR pathways (A). Blue represents inhibited expression in WT macrophages compared to the upregulation in PPARγ-deficient, while red indicates upregulation in WT compared to a suppressed expression in PPARγ-deficient macrophages. Heatmaps were generated with R software (version 3.2.3). NLR and PPAR pathways are represented in these diagrams (B). These images were generated with Microsoft PowerPoint (version 15.40). Top genes, based on the differential expression analysis represented in the heatmap, are highlighted in red and selected as seed genes. Schematic representation of the steps performed during the bioinformatics analysis, after the seed genes selection (C). The 21 genes included in the final set were classified in five groups based on their expression pattern (D).

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