Fig. 2.

Identification and relative quantification of MHC class II-bound peptides. A, Volcano plot representation showing reproducibly detected peptide ions across duplicate analyses. MoDCs from donor A (DRB1*0101, 1301) were used. FVIII-treated cells were immunoprecipitated using either an anti-MHC class II antibody or an isotype control antibody. Experiments were performed in duplicate. SIEVE was used to compare intensities of individual peptides eluted from L243 or isotype-control Sepharose. Peptide clusters highlighted in the box on the right hand side were considered as MHC class II-bound peptides (fold change ≥5). Only peptides that were sequenced by MS/MS are depicted. FVIII-derived peptides are indicated in red. The sequence and ratio of all FVIII peptides are shown in panel (B).