pVACview

pVACview aids in the prioritization and selection of neoantigen candidates for personalized cancer vaccines by enabling interactive visualization of variant, transcript, peptide, and algorithm prediction information.

Key Features:

• Multi-level candidate visualization: Displays neoantigen candidates at variant, transcript, peptide, and algorithm prediction levels of detail.
• Candidate exploration and selection: Supports upload, exploration, selection, and export of neoantigen candidates.
• Integration of neoantigen features: Incorporates variant detection, gene expression, predicted peptide binding affinities, mutation location, allele-specific anchor locations, and variation of T-cell response to long versus short peptides.
• Multiple transcript and peptide handling: Addresses alternative transcript annotations and variable peptide lengths/registers without limiting prediction to a single RNA isoform or only top-ranked candidates.

Scientific Applications:

• Personalized neoantigen therapy design: Facilitates candidate selection for personalized cancer vaccines and other neoantigen-targeting therapies.
• Clinical trial design: Supports accurate identification and prioritization of neoantigens for designing clinical trials involving personalized vaccines combined with checkpoint blockade therapy.
• Treatment response prediction: Enables analysis of neoantigen features relevant to predicting treatment response and understanding mechanisms of resistance.

Methodology:

pVACview processes outputs from computational neoantigen prediction pipelines that use massively parallel DNA and RNA sequencing technologies and patient-specific variant information.