J. Sidney

PINK1 is a target of T cell responses in Parkinson's disease

The paper identifies PINK1 as an autoantigen targeted by T cells in Parkinson's disease, with reactivity predominantly observed in male patients.

Genome-wide characterization of T cell responses to Bordetella pertussis reveals broad reactivity and similar polarization irrespective of childhood vaccination profiles.

This study maps human CD4+ T cell responses to Bordetella pertussis across its genome, revealing broad reactivity and similar polarization regardless of vaccination history.

Defining antigen targets to dissect vaccinia virus (VACV) and Monkeypox virus (MPXV)-specific T cell responses in humans

The paper predicts MPXV T cell epitopes using VACV epitope data and identifies immunodominant targets to design peptide pools for detecting cross-reactive T cells in vaccinated individuals.

SARS-CoV-2 vaccination induces immunological memory able to cross-recognize variants from Alpha to Omicron

This study shows that SARS-CoV-2 vaccines induce T cell responses that cross-recognize variants from Alpha to Omicron, with high preservation of CD4+ and CD8+ T cell epitopes.

Profiling Human CMV-specific T cell responses reveals novel immunogenic ORFs

The paper identifies 235 unique HCMV-specific T cell epitopes, including 41 from recently described novel ORFs, revealing a broader T cell response to HCMV than previously known.

Negligible impact of SARS-CoV-2 variants on CD4+ and CD8+ T cell reactivity in COVID-19 exposed donors and vaccinees.

The paper analyzes T cell responses to SARS-CoV-2 variants and finds minimal impact on CD4+ and CD8+ T cell reactivity in convalescents and vaccinees.

Comprehensive analysis of T cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases

The paper identifies SARS-CoV-2 epitopes recognized by CD4+ and CD8+ T cells in COVID-19 patients and develops epitope megapools for their detection.

Antigen-specific induction of CD4+CD8αα+ intraepithelial T lymphocytes byBacteroidetes species

This study identifies Bacteroidetes species that induce CD4+CD8αα+ intraepithelial T lymphocytes, which provide protective immunity against colitis.

Identification and characterization of CD4+ T cell epitopes after Shingrix vaccination.

This study identifies and characterizes CD4+ T cell epitopes specific to Shingrix vaccination, showing a shift in immunodominance from non-structural proteins to gE and mapping HLA restrictions for these epitopes.

Comparison of HLA ligand elution data and binding predictions reveals varying prediction performance for the multiple motifs recognized by HLA-DQ2.5

This study compares HLA ligand elution data with binding predictions for HLA-DQ2.5, finding discrepancies due to ambiguous MHC restriction and underprediction of certain peptides.

Generation of a novel SARS-CoV-2 sub-genomic RNA due to the R203K/G204R variant in nucleocapsid: homologous recombination has potential to change SARS-CoV-2 at both protein and RNA level

The paper identifies a novel SARS-CoV-2 sub-genomic RNA generated by homologous recombination involving the R203K/G204R variant in nucleocapsid, which may enhance viral adaptation and expression.

An Effective CTL Peptide Vaccine for Ebola Zaire Based on Survivors' CD8+ Targeting of a Particular Nucleocapsid Protein Epitope with Potential Implications for COVID-19 Vaccine Design

The paper identifies a conserved Ebola Zaire epitope that provides protection in mice and suggests its potential application in COVID-19 vaccine design.

Candidate targets for immune responses to 2019-Novel Coronavirus (nCoV): sequence homology- and bioinformatic-based predictions

The paper identifies potential immune targets for 2019-nCoV using sequence homology and bioinformatic predictions.

Immuno-proteomic interrogation of dengue infection reveals novel HLA haplotype-specific MHC-I antigens

This study identifies novel MHC-I antigens specific to dengue virus infection using an immuno-proteomics approach, revealing ligands associated with distinct HLA haplotypes and T-cell recognition.