Fig 1: Peptide identification and selection of vaccine candidates.a Distribution of unique human and BCG peptides identified in each experiment. Distribution of unique human peptides from the four experiments combined, identified in function of length (b), and according to the netMHCpan rank (c). The best match HLA binding allele for each peptide was determined and selected. MHC-I peptides with a rank = 0.5 or between 0.5 and 3.0 were considered strong or weak binders, respectively. MHC-II peptides with a rank = 2 or between 2 and 10 were considered strong or weak binders, respectively. The remaining peptides were excluded. The alleles identified as best binders were HLA-A*02:01, HLA-B*15:11, HLA-B*15:15, HLA-C*03:03, HLA-C*03:13, HLA-DRB1*01:01, HLA-DRB1*15:01 and HLA-DRB5*01:01. d Selection of unique BCG peptides from total peptides following the pipeline for identification. A Peaks score cut-off of >15 was used for the peptide identification. After applying our data analysis pipeline, peptides were selected for presence in more than 1 sample (I, II). These were further selected if found in different experiments (III, IV) or if found in more than one sample but not in different experiments (V, VI). If peptides were not present in more than one sample, they were further down-selected into different peptide sequences found on the same antigen (VII, VIII) or found only once (IX, X). MHC-II peptides also presented nested sequences included in II and IV. e Total BCG antigens identified by MHC-I and MHC-II. f Table showing selected antigens for vaccine production.