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GenomicsSARS-CoV-2 escapes CD8 T cell surveillance via mutations in MHC-I restricted epitopes [10x]
CD8+ T cell immunity to SARS-CoV-2 has been implicated in COVID-19 severity and virus control. Here, we identified non-synonymous mutations in MHC-I restricted CD8+ T cell epitopes after deep sequencing of 747 SARS-CoV-2 virus isolates. Mutant peptides exhibited diminished or abrogated MHC-I binding...
EGAS00001005060 | EGA
2019 novel coronavirus infection 2019-nCoV infection coronavirus disease 2019 COVID-19 SARS-coronavirus 2 SARS-CoV-2 severe acute respiratory syndrome coronavirus 2 
ProteomicsIdentification of naturally-presented influenza A virus CD8+ T cell epitopes
Influenza viruses (IV) infection is a public health concern worldwide. Currently, all available vaccines as well as antiviral drugs that target the virus itself are prone to resistance. Lessons learned from previous pandemic outbreaks is that people with a preexisting cellular immune response are ei...
ORGANISM(S): Homo sapiens (Human) 
2024-05-22 | PXD035241 | Pride
Influenza a virus Ligandome analysis Cd8+ t cell T cell epitopes 
TranscriptomicsCITE-seq of human blood CD8+ T cells
The purpose of the experiment was to investigate the differentiation state gradient among antigen-experienced CD8+ T cells in healthy human blood. This was a sub-goal within a larger experiment, which aimed to investigate the clonal relationship between CD8+ T cells in blood and skin of matched dono...
ORGANISM(S): Homo sapiens 
2023-06-30 | E-MTAB-13034 | biostudies-arrayexpress
TranscriptomicsTCR repertoire profiling of CMV specific and SARS-CoV2 Spike specific CD8+ T cells using single cell sequencing
We introduced single-chain trimer (SCT) technologies into a high throughput platform for pMHC library generation that can be used for screening antigen specific CD8+ T cells. We compared the diversity of T cell receptor repertoire captured by SCT and folded peptide-MHC multimer presenting HLA-A02:01...
ORGANISM(S): Homo sapiens 
2022-01-01 | E-MTAB-11229 | biostudies-arrayexpress
TranscriptomicsSingle cell RNA seq of influenza tetramer specific CD8+ T cells from baseline, acute and long term memory timepoints
The aim of the experiment was to assess the differentiation and activation status of influenza-specific CD8+ T cells (A2/PB1 413 and A2/BHA 543) from an individual naturally infected with influenza B (PCR-confirmed). Single tetramer+ CD8+ T cells from tetramer-enriched PBMCs were sorted from baselin...
ORGANISM(S): Homo sapiens 
2019-02-18 | E-MTAB-7606 | biostudies-arrayexpress
TranscriptomicsCoupled single-cell RNA, TCR, and barcoded pMHC multimer sequencing, from virus-specific PBMC T-cells
Virus-specific CD8 T cells from PBMCs of healthy donors and hepatitis patients were enriched for recognition of a panel of feature barcode-labeled pMHC multimers. The phenotypic description was made using gene expression and TCRseq. Samples were pooled and sequenced on the same 10x Genomics sequenci...
ORGANISM(S): Homo sapiens 
2024-05-01 | E-MTAB-13758 | biostudies-arrayexpress
TranscriptomicsNKp44/HLA-DP-dependent regulation of CD8 T cell clonality by NK cells
NK cells are increasingly recognized for their modulation of adaptive T cell responses; however the mechanisms by which NK cells modulate immune responses in human are unclear. Here we report that NKp44+ NK cells regulate CD8+ T cell expansion in an HLA-DP haplotype-dependent process. HLA-DP express...
ORGANISM(S): Homo sapiens 
2025-10-10 | E-MTAB-13405 | biostudies-arrayexpress
GenomicsImproved predictions of immunogenicity reveal SARS-Cov-2 CD8 T-cell epitopes
Improved predictions of immunogenicity reveal SARS-Cov-2 CD8 T-cell epitopes
PRJNA830364 | ENA
TranscriptomicsSingle cell CITE-seq and VDJ sequencing of epidermal and blood T cells
The aim of the experiment was to investigate the clonal relationship between CD8+ T cell subsets of donor matched blood with epidermal CD8+ T cells. Abdominal skin (n=8) was separated into dermis and epidermis, followed by epidermal skin and PBMC isolation. Single CD8+ T cells (n=6) and CD3+ T cells...
ORGANISM(S): Homo sapiens 
2023-06-12 | E-MTAB-12839 | biostudies-arrayexpress
ProteomicsImmunopeptidomics identification of Listeria monocytogenes T cell epitopes in mice
Listeria monocytogenes is a foodborne intracellular bacterial model pathogen. Protective immunity against Listeria depends on an effective CD8 T-cell responses, but very few T cell epitopes are known in mice as most common animal infection model for listeriosis. To identify epitopes we screened for ...
ORGANISM(S): Mus musculus (Mouse) Listeria monocytogenes 
2024-08-13 | PXD047750 | Pride
Mhc Listeria monocytogenes T-cell epitopes Immunopeptidomics Mouse 
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