Sine Reker Hadrup

The paper shows that human CD8+ T cell memory is nested within drainage regions, with shared repertoires among nodes within a region regardless of virus specificity.

This paper introduces a supervised learning denoising method to identify low-quality labels in TCR specificity data, improving model reliability by filtering noisy examples.

The paper identifies an EBV-specific T cell program in MS patients that contributes to CNS autoimmunity through B cell and myeloid cell activation.

Odin-Multi is a binder design framework that optimizes sequences against multiple targets simultaneously, improving cross-reactivity and specificity compared to single-target methods.

This paper identifies KIR-mediated pHLA-C binding as a confounder in T-cell analysis and provides a method to distinguish it from TCR-specific binding.

This paper introduces a hybrid quantum-classical pipeline for designing MHC-binding peptides, showing that quantum-derived priors improve the yield of strong binders, especially for understudied HLA alleles.

This paper introduces a DNA-barcode labelled MHCII multimer method to detect antigen-specific CD4 T cells across large epitope libraries and identifies 12 novel HCV epitopes.

This study shows that Ag-Neo2/15 scaffolds expand antigen-specific T cells with enhanced cytotoxicity and reduced dysfunctionality compared to Ag-IL2/21 scaffolds.

This study identifies HLA class I-restricted CD8+ T-cell epitopes in RA and shows how citrullination affects antigen recognition and T-cell clonotype stability.

This study shows that mRNA-delivered consensus allergens induce neutralizing IgG responses against multiple food and pollen allergens, offering a safer and broader allergy immunotherapy approach.

This study identifies impaired HPV-specific CD8 T cell recognition and a suppressive immune microenvironment in cervical cancer, highlighting the need for enhanced T cell responses and immune suppression targeting.

This paper introduces T-Expand, a dextran-based nanoparticle system for T cell expansion that enhances CAR T cell efficacy and reduces manufacturing complexity.

ITRAP2 improves TCR-pMHC pairing accuracy by reducing noise and cross-contamination in single-cell data, outperforming existing methods on both in-house and public datasets.

The paper presents a yeast-based system to simulate CD19+ cancers for controlled CAR T cell activation and evaluates antigen density effects.

This study develops antigen-scaffold technology to expand CAR and TCR T cells with improved functionality and efficacy.

The paper identifies HLA-specific depletion of CD8 T-cell responses to EBV and neuroantigens in MS patients, revealing immunophenotypic differences between MS and healthy donors.

This paper develops antigen-dextramers to stain and functionally assess CAR T cells, showing they enable both detection and activation analysis with adjustable antigen density.

This paper designs de novo pMHC binders using generative models to create T cell-based cancer therapeutics with high specificity and minimal cross-reactivity.

This study identifies antigen-specific CD8+ T-cell responses linked to disease severity in SARS-CoV-2 infection, showing functional impairment and recognition bias.

The paper introduces a temperature-based peptide exchange method for loading different peptides into MHC-I multimers for HLA-A, B, and C alleles, enabling high-throughput T cell response analysis.

Genesis is a modular protein language model that improves immunogenicity prediction for CD8+ epitopes by integrating pMHC and TCR context, outperforming existing models in precision.

The paper detects neoantigen-reactive CD8+ T cells in tumor biopsies and peripheral blood post-checkpoint blockade therapy and identifies peptide hydrophobicity and treatment-induced phenotypes as factors influencing their response.

A sequence-only convolutional network trained on T cell receptor (TCR)-peptide pairs for HLA-A*02:01 can single out TCRs that bind a target peptide among many non-binding ones.