Extended Data Fig. 9. RNA-seq and ATAC-seq analyses of mMDSCs in tumor and bone marrow of mice exposed to MI or sham surgery.

(a) Heat map showing differential gene expression (log2FC) of select immune-related genes from RNA-Seq of tumoral CD11b⁺Ly6C^high mMDSCs from mice 17 days post-MI (n=5) or sham (n=6) surgery (P_adj<0.1). (b) Gene set concordance analysis showing that the top 1000 differentially expressed genes up- and down-regulated in tumor CD11b⁺Ly6C^high mMDSCs (x axis) are enriched in genes up- and down-regulated in bone marrow Ly6C^high monocytes (y axis) from the same mice 17 days post-MI, compared to background gene expression. (c) Gene ontology (GO) analyses of more accessible chromatin regions (n=942) in bone marrow Ly6C^high monocytes from mice exposed to MI vs. sham surgery. (d) List of genes differentially expressed in tumor Ly6C^high monocytes whose chromatin loci that are also less accessible in bone marrow Ly6C^high monocytes after MI compared to sham surgery, grouped by transcription factors identified in Figure 3e. (e) ATAC-Seq (top) and RNA-Seq (bottom) reads in bone marrow and tumor Ly6C^high monocytes at selected gene loci. P(adj) values were calculated using the Benjamini-Hochberg method (a). P values determined by two-sided Student’s T-test (b) or hypergeometric distribution (c).