Neo-intline: integrated pipeline enables neoantigen design through the in-silico presentation of T-cell epitope.

ABSTRACT: Neoantigen vaccines are one of the most effective immunotherapies for personalized tumour treatment. The current immunogen design of neoantigen vaccines is usually based on whole-genome sequencing (WGS) and bioinformatics prediction that focuses on the prediction of binding affinity between peptide and MHC molecules, ignoring other peptide-presenting related steps. This may result in a gap between high prediction accuracy and relatively low clinical effectiveness. In this study, we designed an integrated in-silico pipeline, Neo-intline, which started from the SNPs and indels of the tumour samples to simulate the presentation process of peptides in-vivo through an integrated calculation model. Validation on the benchmark dataset of TESLA and clinically validated neoantigens illustrated that

SUBMITTER: Li B 

PROVIDER: S-EPMC10582007 | biostudies-literature | 2023 Oct

REPOSITORIES: biostudies-literature