AutoEpiCollect, a Novel Machine Learning-Based GUI Software for Vaccine Design: Application to Pan-Cancer Vaccine Design Targeting PIK3CA Neoantigens

M Samudrala, S Dhaveji, K Savsani… - Bioengineering, 2024 - mdpi.com
Previous epitope-based cancer vaccines have focused on analyzing a limited number of
mutated epitopes and clinical variables preliminarily to experimental trials. As a result …

AutoPepVax, a Novel Machine-Learning-Based Program for Vaccine Design: Application to a Pan-Cancer Vaccine Targeting EGFR Missense Mutations

E Bautista, YH Jung, M Jaramillo, H Ganesh, A Varma… - Pharmaceuticals, 2024 - mdpi.com
The current epitope selection methods for peptide vaccines often rely on epitope binding
affinity predictions, prompting the need for the development of more sophisticated in silico …

Targeting the heterogeneity of cancer with individualized neoepitope vaccines

Ö Türeci, M Vormehr, M Diken, S Kreiter, C Huber… - Clinical Cancer …, 2016 - AACR
Somatic mutations binding to the patient's MHC and recognized by autologous T cells
(neoepitopes) are ideal cancer vaccine targets. They combine a favorable safety profile due …

Development of antigen‐prediction algorithm for personalized neoantigen vaccine using human leukocyte antigen transgenic mouse

J Charneau, T Suzuki, M Shimomura… - Cancer …, 2022 - Wiley Online Library
Immunotherapy is currently recognized as the fourth modality in cancer therapy. CTL can
detect cancer cells via complexes involving human leukocyte antigen (HLA) class I …

Neoantigen-based personalized cancer vaccines: the emergence of precision cancer immunotherapy

G Richard, MF Princiotta, D Bridon… - Expert Review of …, 2022 - Taylor & Francis
Introduction The field of cancer therapy has undergone a major transformation in less than a
decade due to the introduction of checkpoint inhibitors, the advent of next generation …

The changing landscape of therapeutic cancer vaccines—novel platforms and neoantigen identification

J Jou, KJ Harrington, MB Zocca, E Ehrnrooth… - Clinical Cancer …, 2021 - AACR
Therapeutic cancer vaccines, an exciting development in cancer immunotherapy, share the
goal of creating and amplifying tumor-specific T-cell responses, but significant obstacles still …

Genomic analysis of 63,220 tumors reveals insights into tumor uniqueness and targeted cancer immunotherapy strategies

RJ Hartmaier, J Charo, D Fabrizio, ME Goldberg… - Genome Medicine, 2017 - Springer
Background The integration of genomics with immunotherapy has potential value for cancer
vaccine development. Given the clinical successes of immune checkpoint modulators …

Vaxrank: a computational tool for designing personalized cancer vaccines

A Rubinsteyn, I Hodes, J Kodysh, J Hammerbacher - Biorxiv, 2017 - biorxiv.org
Therapeutic vaccines targeting mutant tumor antigens (“neoantigens”) are an increasingly
popular form of personalized cancer immunotherapy. Vaxrank is a computational tool for …

Prioritizing candidate peptides for cancer vaccines through predicting peptide presentation by HLA-I proteins

LY Zhou, F Zou, W Sun - Biometrics, 2023 - academic.oup.com
Cancer (treatment) vaccines that are made of neoantigens, or peptides unique to tumor cells
due to somatic mutations, have emerged as a promising method to reinvigorate the immune …

ProTECT—prediction of T-cell epitopes for cancer therapy

AA Rao, AA Madejska, J Pfeil, B Paten… - Frontiers in …, 2020 - frontiersin.org
Somatic mutations in cancers affecting protein coding genes can give rise to potentially
therapeutic neoepitopes. These neoepitopes can guide Adoptive Cell Therapies and …