Neoantigen discovery sheds light on cancer immunogenicity NatureComms immunogenicity cancer neoantigen cancerresearch
By Neha MathurAug 4 2023Reviewed by Lily Ramsey, LLM In a recent article published in Nature Communications, researchers reported a proteogenomic approach to investigate fresh solid melanoma tumor material. The approach combines liquid chromatography-tandem mass spectrometry of immuno-precipitated human leukocyte antigen class I peptides with whole exome sequencing for the discovery and validation of neoantigen candidates at the protein level.
About the study In the current study, researchers used tumor material and blood from 32 cancer patients of the ImmoNEO MASTER cohort with diverse tumors for the proteogenomic analysis to find new tumor-suppressing neoantigens. Finally, the team validated all identified RNA variants and peptides for their tumor-specificity by analyzing their prevalence in tissue RNA-seq data from the genotype-tissue expression project.
Another intriguing observation was that tumors with low levels of somatic mutations also harbored a high amount of RNA variants. They detected nearly ten times more RNA variants compared to DNA variants. The peptide length of all identified neoantigen candidates ranged from eight to 14 amino acids with a predominance of nonamers.
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