Fig. 2

Predicted MHC-binding peptides for immunoglobulin diagnostic sequences and frequency of T-cell exposed motifs (TCEMs). a Regional distribution of relatively rare neoantigens (TCEM frequency classification [FC]> > 16) derived from light chain (left) and heavy chain (right) immunoglobulin genes in DLBCL patients. Protein sequences are aligned with cysteine at the start of complementarity determining region 3 (CDR3) at the 0 of the X axis; peptides upstream of CDR3 were defined as framework region 3 (FW3). The stimulation metric was computed using the principle of the additivity of variance and is a product of the standardized MHC-II-binding affinity multiplied by the FC summed over all HLA-DR alleles. Each dot represents one peptide predicted as having high MHC-II-binding affinity (exceeding the − 1 standard deviation threshold for MHC derived from 24 HLA-DR alleles) and relatively rare TCEMs (FC > 16). The color intensities of the dots are scaled on the FC scale, which ranges from FC16 to the very rare FC24. b Histograms showing the distribution of the FC of the TCEMs in all MHC-II-binding peptides predicted for index trackable sequences. The FC scale ranges from the commonly presented FC1 to the very rare FC24. c Compared with cases without a high degree of heavy chain or light chain IGV SHM, cases with high degree of heavy chain or light chain IGV SHM had higher frequencies of relatively rare TCEMs (FC > 16)