Fig. 2: Global gene expression profiles of blood cells (Mo, Nφ, and Eφ) and lesion biopsies from study participants during the course of treatment.
From: Innate biosignature of treatment failure in human cutaneous leishmaniasis
RNA-seq was carried out on biopsies collected pre-treatment and on 3 types of leukocytes (Mo, Nφ, and Eφ) collected pre-treatment (Pre-Tx), mid-treatment (Mid-Tx), and at the end of treatment (End-Tx). C = cures, F = treatment failure (A). A principal component analysis (PCA) plot (B) and heatmap of hierarchical clustering analysis using pairwise correlations (C) are shown for all samples. The analyses were performed using all annotated protein-coding genes following filtering for low counts, CPM, quantile normalization, and log2 transformation. In the PCA plot, the first two principal components are shown on the X and Y-axes, respectively, with the proportion of total variance attributable to that PC indicated. Each sample is represented as a single point with color indicating cell type and shape indicating treatment outcome. Colors along the top of the heatmap indicate the cell type. Colors within the inset of the heatmap represent correlation values. The green line represents the frequency of correlation values.
