The AAMDC , CLNS1A , INTS4 , KCTD14 , NDUFC2 , NDUFC2-KCTD14 , RSF1 , and THRSP loci were found to be co-amplified in melanomas from five non-responders but in none from responders, with a trend toward significance after FDR correction (Fisher’s exact p = 0.013; FDR-adjusted p = 0.094; Figure 1 ; Table S1 D).
Importantly, tumors from responding patients showed a trend toward a more clonal BCR repertoire (FDR-adjusted p = 0.076; Figure S7 ; Table S1 M).
In addition, we investigated whether the transcriptome-derived B cell enrichment correlated with the approximate density of plasma cells by morphologic assessment in hematoxylin/eosin-stained tissue sections; however, this correlation did not reach statistical significance, likely due to the small number of cases in the subset of tumors available for this analysis (n = 26; data not shown).