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Germline-like TCR alpha chains dominate shared self-reactive T cell receptors in type 1 diabetes

ABSTRACT: Germline-like TCR alpha chains dominate shared self-reactive T cell receptors in type 1 diabetes

PROVIDER: PRJNA758093 | ENA |

REPOSITORIES: ENA

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Germline-like TCR alpha chains dominate shared self-reactive T cell receptors in type 1 diabetes

Project description:Human islet antigen reactive CD4+ memory T cells (IAR T cells) play a key role in the pathogenesis of autoimmune type 1 diabetes (T1D). Using single cell RNA-sequencing (scRNA-seq) to identify T cell receptors (TCRs) in IAR T cells, we have identified a class of TCRs that share TCR alpha chains between individuals (“public”).

2021-12-15 | GSE182870 | GEO

Germline-like TCR alpha chains shared between autoreactive T cells in blood and pancreas [dataset1]

Project description:How human islet antigen reactive CD4+ memory T cells (IAR T cells) from peripheral blood affect Type 1 Diabetes (T1D) progression in the pancreas is poorly understood. We identified paired alpha/beta (TRA/TRB) T cell receptors (TCRs) in IAR T cells from the blood of healthy, at-risk, new onset, and established T1D donors, and measured sequence overlap with TCRs in pancreata from organ donors. We detected extensive TRA junction sharing between IAR T cells and pancreatic infiltrating T cells (PIT), with perfect or single mismatched TRA junction amino acid sequences comprising ~34% of unique IAR TRA junctions. PIT-matched TRA junctions were largely public, and showed significant nucleotide sequence convergence, increased use of germline-encoded residues in epitope engagement, and a potential for cross-reactivity. The link with T cells in the pancreas implicates autoreactive IAR T cells with shared TRA junctions in the prediabetic and new onset phases of T1D progression.

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Germline-like TCR alpha chains shared between autoreactive T cells in blood and pancreas [dataset2]

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Identification of shared TCR sequences from T cells in human breast cancer using emulsion RT-PCR

Project description:We report the discovery of T cell receptors that are present and shared in multiple HLA-matched breast cancer patient tumors using a single cell emulsion based RT-PCR technique that pairs the alpha and beta TCR chains for high throughput analysis

2016-05-11 | GSE81313 | GEO

Deposition for: Mild and Chemoselective, Light-Driven Post-translational Editing Allows Installation of Reactive Side-Chains into Proteins

Project description:MS/MS characterisation data of the publication: Mild anChemoselective, Light-Driven Post-Translational Editing Allows Installation of Reactive Side Chains into Proteins.

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Germline-like TCR alpha chains shared between autoreactive T cells in blood and pancreas

Project description:This SuperSeries is composed of the SubSeries listed below.

2024-04-16 | GSE256481 | GEO

Single-chain V?V? T-cell receptors function without mispairing with endogenous TCR chains.

Project description: Not available

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Tumor-reactive clonotype dynamics dictate clinical response to TIL therapy in melanoma [TCR-Seq]

Project description:Adoptive cell therapy (ACT) using tumor-infiltrating lymphocytes (TILs) is effective in cancer patients, yet the profiles, specificity and dynamics of tumor clonotypes remain opaque. Using single-cell RNA/TCR-sequencing, clonotypes were tracked from baseline tumors to ACT products (ACTP) and post-ACT blood and tumor samples from 13 metastatic melanoma patients (NCT03475134). Furthermore, a predictor of tumor-reactive clonotypes was derived from the transcriptomic profiles of tumor-specific or bystander clones. Patients with clinical responses had tumors enriched in tumor-reactive TILs, preferentially expanding in-vitro to generate larger and more tumoricidal products and preferentially re-infiltrating tumors post-ACT. Conversely, lack of responses was associated with tumors devoid of tumor-reactive clonotypes and with cell products mostly composed of blood-borne clonotypes. The exhaustion state characterizing intratumoral tumor-reactive TILs was attenuated during in-vitro expansion and restored after tumor re-engraftment only in responders. Thus, tumor-reactive clonotypes drive clinical response to TIL therapy, providing insight to select patients or improve TILs’ culture.

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Autoreactive T cell receptors with shared germline-like α chains in type 1 diabetes.

Project description: Not available

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Toxicity of LCDD monoclonal Ig free light chains

Project description:Toxicity of LCDD monoclonal Ig free light chains

| PRJNA487939 | ENA