Fig. 5: CML stem/progenitor cells have a dysregulated protein secretome.

a, b Schematic diagram of BM LT-HSC RNA sequencing experimental setup and gene ontogeny (GO) enrichment analysis of significant differentially expressed genes (FDR < 0.05) in CML LT-HSCs (n = 4 mice per experimental arm). Schematic created with BioRender.com (Agreement number: QN268HV791). c Schematic diagram of c-kit isolation and conditioned medium generation for secretory proteomics (MS). created with BioRender.com (Agreement number: HF268HUP38). d Volcano plot representing log₂ fold change between CML and WT mice against log₂ p-value for secreted proteins (N = 3 mice per experimental arm). e Log₂ fold change (CML/Control) of significantly changed proteins (FDR < 0.05) in CML vs WT. f Lactotransferrin (LTF) ELISA in c-KIT⁺ conditioned medium (48 h) from SCLtTA⁺/BCR-ABL⁻ (n = 9 conditioned medium samples) or SCLtTA⁺/BCR-ABL⁺ (n = 7 conditioned medium samples). Data are presented as the mean ± s.e.m. P-values were calculated using DESeq2 pairwise two-tailed t-test (fold change < −1 or > 1; p < 0.05) and the Benjamini–Hochberg method to correct for multiple comparisons (b), unpaired two-tailed t-test (f), and paired two-tailed t-test (e). Source data are provided as a Source Data file.