Extended Data Fig. 1: Flow cytometry panel, gating and immune cell distributions.

(a) Representative flow cytometry plots with gating strategy used for lymphoid panel (left) and myeloid panel (right) (b) Marker combinations used to define immune cell populations in lymphoid cell panel (left) and myeloid cell panel (right) (c) Intra-patient lymphoid cell frequencies in ER+ IDC TA (n = 27) and matched tumor (n = 29) (left panel) and ER+ ILC TA (n = 23) and matched tumor (n = 24) (right panel). Paired two-sided Wilcoxon rank-sum test was used for statistical analysis. Exact p values are- B cells (p = 0.000153), CD4⁺ T cells (p = 0.000551), CD8⁺ T cells(p = 0.000607) and Tregs (p = 0.000016) (d) Intra- patient myeloid cell frequencies in ER+ IDC TA (n = 19) and matched tumor (n = 23) (left panel) and ER+ ILC TA (n = 21) and matched tumor (n = 23) (right panel). Paired two-sided Wilcoxon rank-sum test was used for statistical analysis (e) Comparison of lymphoid infiltrate in ER+ IDC (n = 29) vs ILC (n = 24) tumor tissues. Non-parametric two-sided Mann-Whitney test was used for statistical analysis (f) Comparison of myeloid infiltrate in ER+ IDC (n = 23) vs ILC (n = 23) tumor tissues. Non-parametric two-sided Mann-Whitney test was used for statistical analysis.