Identification of T-cell receptors targeting KRAS-mutated human tumors

QJ Wang, Z Yu, K Griffith, K Hanada, NP Restifo… - Cancer immunology …, 2016 - AACR
KRAS is one of the most frequently mutated proto-oncogenes in human cancers. The
dominant oncogenic mutations of KRAS are single amino acid substitutions at codon 12, in …

Validation of biomarkers to predict response to immunotherapy in cancer: volume I—pre-analytical and analytical validation

GV Masucci, A Cesano, R Hawtin, S Janetzki… - … for immunotherapy of …, 2016 - Springer
Immunotherapies have emerged as one of the most promising approaches to treat patients
with cancer. Recently, there have been many clinical successes using checkpoint receptor …

Retrieval and investigation of data on SARS-CoV-2 and COVID-19 using bioinformatics approach

M Fahmi, VD Kharisma, ANM Ansori, M Ito - Coronavirus disease-COVID …, 2021 - Springer
Sudden emergence and a rapid outbreak of SARS-CoV-2 accompanied by a devastating
impact on the economy and public health has driven extensive scientific mobilization to …

Immunoinformatics and epitope prediction in the age of genomic medicine

L Backert, O Kohlbacher - Genome medicine, 2015 - Springer
Immunoinformatics involves the application of computational methods to immunological
problems. Prediction of B-and T-cell epitopes has long been the focus of immunoinformatics …

Systematically benchmarking peptide-MHC binding predictors: From synthetic to naturally processed epitopes

W Zhao, X Sher - PLoS computational biology, 2018 - journals.plos.org
A number of machine learning-based predictors have been developed for identifying
immunogenic T-cell epitopes based on major histocompatibility complex (MHC) class I and II …

TCR repertoire intratumor heterogeneity in localized lung adenocarcinomas: an association with predicted neoantigen heterogeneity and postsurgical recurrence

A Reuben, R Gittelman, J Gao, J Zhang, EC Yusko… - Cancer discovery, 2017 - AACR
Genomic intratumor heterogeneity (ITH) may be associated with postsurgical relapse of
localized lung adenocarcinomas. Recently, mutations, through generation of neoantigens …

Designing neoantigen cancer vaccines, trials, and outcomes

N Biswas, S Chakrabarti, V Padul, LD Jones… - Frontiers in …, 2023 - frontiersin.org
Neoantigen vaccines are based on epitopes of antigenic parts of mutant proteins expressed
in cancer cells. These highly immunogenic antigens may trigger the immune system to …

Pan-specific prediction of peptide–MHC class I complex stability, a correlate of T cell immunogenicity

M Rasmussen, E Fenoy, M Harndahl… - The Journal of …, 2016 - journals.aai.org
Binding of peptides to MHC class I (MHC-I) molecules is the most selective event in the
processing and presentation of Ags to CTL, and insights into the mechanisms that govern …

HLA class I alleles are associated with peptide-binding repertoires of different size, affinity, and immunogenicity

S Paul, D Weiskopf, MA Angelo, J Sidney… - The Journal of …, 2013 - journals.aai.org
Prediction of HLA binding affinity is widely used to identify candidate T cell epitopes, and an
affinity of 500 nM is routinely used as a threshold for peptide selection. However, the fraction …

Durable complete response to neoantigen-loaded dendritic-cell vaccine following anti-PD-1 therapy in metastatic gastric cancer

Z Guo, Y Yuan, C Chen, J Lin, Q Ma, G Liu… - NPJ Precision …, 2022 - nature.com
Neoantigens are ideal targets for dendritic cell (DC) vaccines. So far, only a few neoantigen-
based DC vaccines have been investigated in clinical trials. Here, we reported a case of a …