Figure S1. Global assessment of data distribution. Figure S2. Principal Component Analysis (PCA) and hierarchical clustering analysis prior to accounting for batch effects. Figure S3. Global changes in murine macrophage gene expression upon infection by L. major. Figure S4. Expression patterns for the top 20 up- and down-regulated genes in L. major-infected murine macrophages at 4, 24, 48, and 72 hpi. Figure S5. Global changes in L. major and murine macrophage gene expression over the course of infection. Figure S6. Mean-variance curve modeling and fitting of a local regression trend line by voom. Table S1. KEGG pathways enriched among genes upregulated in L. major-infected murine macrophages at 24, 48, and 72 hpi. Table S2. KEGG pathways enriched among genes downregulated in L. major-infected murine macrophages at 24, 48, and 72 hpi. (PDF 25627 kb)