Accurate TCR-pMHC interaction prediction using a BERT-based transfer learning method

J Zhang, W Ma, H Yao - Briefings in Bioinformatics, 2024 - academic.oup.com
Accurate prediction of TCR-pMHC binding is important for the development of cancer
immunotherapies, especially TCR-based agents. Existing algorithms often experience …

Deep learning-based prediction of the T cell receptor–antigen binding specificity

T Lu, Z Zhang, J Zhu, Y Wang, P Jiang, X Xiao… - Nature machine …, 2021 - nature.com
Neoantigens play a key role in the recognition of tumour cells by T cells; however, only a
small proportion of neoantigens truly elicit T-cell responses, and few clues exist as to which …

Deep learning predictions of TCR-epitope interactions reveal epitope-specific chains in dual alpha T cells

G Croce, S Bobisse, DL Moreno, J Schmidt… - Nature …, 2024 - nature.com
T cells have the ability to eliminate infected and cancer cells and play an essential role in
cancer immunotherapy. T cell activation is elicited by the binding of the T cell receptor (TCR) …

EPIC-TRACE: predicting TCR binding to unseen epitopes using attention and contextualized embeddings

D Korpela, E Jokinen, A Dumitrescu… - …, 2023 - academic.oup.com
Motivation T cells play an essential role in adaptive immune system to fight pathogens and
cancer but may also give rise to autoimmune diseases. The recognition of a peptide–MHC …

Predicting TCR-epitope binding specificity using deep metric learning and multimodal learning

AM Luu, JR Leistico, T Miller, S Kim, JS Song - Genes, 2021 - mdpi.com
Understanding the recognition of specific epitopes by cytotoxic T cells is a central problem in
immunology. Although predicting binding between peptides and the class I Major …

Neo-epitope identification by weakly-supervised peptide-TCR binding prediction

Y Gao, Y Gao, W Li, S Wu, F Xing, C Zhou, S Fu… - bioRxiv, 2023 - biorxiv.org
The identification of T cell neo-epitopes is fundamental and computational challenging in
tumor immunotherapy study. As the binding of pMHC-T cell receptor (TCR) is the essential …

Characterizing the interaction conformation between T-cell receptors and epitopes with deep learning

X Peng, Y Lei, P Feng, L Jia, J Ma, D Zhao… - Nature machine …, 2023 - nature.com
Computational modelling of the interactions between T-cell receptors (TCRs) and epitopes
is of great importance for immunotherapy and antigen discovery. However, current TCR …

Determining epitope specificity of T-cell receptors with transformers

AR Khan, MJT Reinders, I Khatri - Bioinformatics, 2023 - academic.oup.com
T-cell receptors (TCRs) on T cells recognize and bind to epitopes presented by the major
histocompatibility complex in case of an infection or cancer. However, the high diversity of …

TEPCAM: Prediction of T‐cell receptor–epitope binding specificity via interpretable deep learning

J Chen, B Zhao, S Lin, H Sun, X Mao, M Wang… - Protein …, 2024 - Wiley Online Library
The recognition of T‐cell receptor (TCR) on the surface of T cell to specific epitope
presented by the major histocompatibility complex is the key to trigger the immune response …

Methods in T cell biology: 2022

E Aguado, ME Call - Frontiers in Immunology, 2023 - frontiersin.org
T cells are crucial players of immune responses by their ability to specifically recognize
foreign, potentially harmful, antigens. To perform such specific recognition, T cells express at …