Extended Data Fig. 4: Pipeline for the identification of bacteria-derived HLA peptides.
From: Identification of bacteria-derived HLA-bound peptides in melanoma
Tumour samples were 16S-sequenced to identify their bacterial composition and analysed using HLA peptidomics. Searching the data according to the bacteria resulted in the identification of bacteria-derived peptides. Peptides were filtered according to their identification quality and ability to bind to the HLA alleles of the patient. Selected bacterial peptides were then tested for reactivity. Identification of bacterial peptide presentation was validated by a HLA peptidomics analysis of cell lines cocultured with bacteria.
