Fig. 4

Expression analysis for the high affinity neoepitopes (FPKM ≥5). (a) The number of the expressed neoepitopes (normalized by total number of samples in each breast cancer subtype) is shown for each FPKM range. 35% (6098/17518) of the neoepitopes are expressed with an FPKM threshold of ≥5. (b) The number of neoepitopes (normalized by the number of samples in each breast cancer subtype) with the highest expressed neoepitope for each patient is shown. 87% (709/815) of patients have at least one potential binding epitope. < 1 includes neoepitopes with expression less than 1.0 FPKM (not including 1.0 FPKM), 1–2 includes neoepitopes with expression equal to or greater than one and less than 2 FPKM, and so on, for all categories