Immunopeptidogenomics: Harnessing RNA-Seq to Illuminate the Dark Immunopeptidome.

ABSTRACT: Human leukocyte antigen (HLA) molecules are cell-surface glycoproteins that present peptide antigens on the cell surface for surveillance by T lymphocytes, which contemporaneously seek signs of disease. Mass spectrometric analysis allows us to identify large numbers of these peptides (the immunopeptidome) following affinity purification of solubilized HLA-peptide complexes. However, in recent years, there has been a growing awareness of the "dark side" of the immunopeptidome: unconventional peptide epitopes, including neoepitopes, which elude detection by conventional search methods because their sequences are not present in reference protein databases (DBs). Here, we establish a bioinformatics workflow to aid identification of peptides generated by noncanonical translation of mRNA or by g

SUBMITTER: Scull KE 

PROVIDER: S-EPMC8724885 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature