Fig. 3

Subsets of monocytes and neutrophils enriched post relapse with low HLA class II expression. (A) UMAP plot of myeloid cells. Each dot indicates an individual cell; color denotes myeloid cell subpopulations. (B) Bubble heatmap showing HLA class II genes across myeloid clusters. Dot size indicates fraction of expressing cells, colored according to normalized expression levels. (C) UMAP plot of myeloid cells. Each dot indicates an individual cell; color denotes clinical response. (D) Bar plots showing distribution of each myeloid cell subset at pre-treatment, responsive, and relapsed stages. (E) Heatmap showing the enrichment score of each myeloid cell subset at pre-treatment, responsive, and relapsed stages. (F) Left panel, box plots showing average expression of HLA class II genes in myeloid cells. P values determined by Mann-Whitney test. Right panel, 2D-density plots showing the distribution of myeloid cells in the UMAP plot of (A). Brightness of each dot is determined by how many points are around it. (G) Box plots showing average expression of HLA class II genes in CD14-Mono-4 cells and Neutrophils. P values determined by Mann-Whitney test. (H) Circos plot showing ligand-receptor (L-R) interactions between cell types. Only L-R pairs associated with genes showing statistically significant association with clinical response are shown. (I) Box plots showing expression of LGALS9 and LILRB2 in CD16⁺ Mono cells. P values determined by Mann-Whitney test