There was no significant expression of most marker genes examined for mesoderm, including DLL3, FOXC1, RIPPLY, T/BRA, FOXA2, MIXL1, endoderm, including AFP, GATA4, GDF1, GDF3, MIXL2, and ectoderm, including FGF5, OTX2, SOX1, PAX6. A few such marker genes, e.g., TWIST2, GATA6, NES, were detected at low levels (Supplementary Figure 5), but at least one of them (TWIST2) has a previously described functional association with TB (Ng et al., 2012). This evidence concerns the gene SOX1 and tuberculosis.