Identification of tumor antigens with immunopeptidomics

C Chong, G Coukos, M Bassani-Sternberg - Nature biotechnology, 2022 - nature.com
The identification of actionable tumor antigens is indispensable for the development of
several cancer immunotherapies, including T cell receptor–transduced T cells and patient …

Cancer neoantigens

TN Schumacher, W Scheper… - Annual review of …, 2019 - annualreviews.org
Malignant transformation of cells depends on accumulation of DNA damage. Over the past
years we have learned that the T cell–based immune system frequently responds to the …

Bystander CD8+ T cells are abundant and phenotypically distinct in human tumour infiltrates

Y Simoni, E Becht, M Fehlings, CY Loh, SL Koo… - Nature, 2018 - nature.com
Various forms of immunotherapy, such as checkpoint blockade immunotherapy, are proving
to be effective at restoring T cell-mediated immune responses that can lead to marked and …

An introduction to mass spectrometry-based proteomics

SR Shuken - Journal of Proteome Research, 2023 - ACS Publications
Mass spectrometry is unmatched in its versatility for studying practically any aspect of the
proteome. Because the foundations of mass spectrometry-based proteomics are complex …

Improved prediction of MHC II antigen presentation through integration and motif deconvolution of mass spectrometry MHC eluted ligand data

B Reynisson, C Barra, S Kaabinejadian… - Journal of proteome …, 2020 - ACS Publications
Major histocompatibility complex II (MHC II) molecules play a vital role in the onset and
control of cellular immunity. In a highly selective process, MHC II presents peptides derived …

Challenges in neoantigen-directed therapeutics

L Lybaert, S Lefever, B Fant, E Smits, B De Geest… - Cancer Cell, 2023 - cell.com
A fundamental prerequisite for the efficacy of cancer immunotherapy is the presence of
functional, antigen-specific T cells within the tumor. Neoantigen-directed therapy is a …

Antigen presentation in cancer—mechanisms and clinical implications for immunotherapy

K Yang, A Halima, TA Chan - Nature Reviews Clinical Oncology, 2023 - nature.com
Over the past decade, the emergence of effective immunotherapies has revolutionized the
clinical management of many types of cancers. However, long-term durable tumour control …

[HTML][HTML] Predicting HLA class II antigen presentation through integrated deep learning

B Chen, MS Khodadoust, N Olsson, LE Wagar… - Nature …, 2019 - nature.com
Accurate prediction of antigen presentation by human leukocyte antigen (HLA) class II
molecules would be valuable for vaccine development and cancer immunotherapies …

[HTML][HTML] Neoantigens: promising targets for cancer therapy

N Xie, G Shen, W Gao, Z Huang, C Huang… - Signal transduction and …, 2023 - nature.com
Recent advances in neoantigen research have accelerated the development and regulatory
approval of tumor immunotherapies, including cancer vaccines, adoptive cell therapy and …

Robust prediction of HLA class II epitopes by deep motif deconvolution of immunopeptidomes

J Racle, J Michaux, GA Rockinger, M Arnaud… - Nature …, 2019 - nature.com
Predictions of epitopes presented by class II human leukocyte antigen molecules (HLA-II)
have limited accuracy, restricting vaccine and therapy design. Here we combined unbiased …