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Single cell RNAseq of immune and stromal cells from human palatine tonsils

ABSTRACT: Single cell RNAseq of immune and stromal cells from human palatine tonsils

PROVIDER: PRJEB56820 | ENA |

REPOSITORIES: ENA

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Single cell RNAseq of immune and stromal cells from human palatine tonsils

Project description:Palatine tonsils are secondary lymphoid organs that are strategically positioned in the oropharynx to secure a first line of defense against oral pathogens. Specialized immune-interacting fibroblasts, generally termed fibroblastic reticular cells (FRC), underpin distinct microenvironments within lymphoid organs to compartmentalize and direct the efficient interaction and activation of immune cells. As a particular anatomical property, palatine tonsils harbor a reticular-shaped lymphoepithelium that generates an antigen sampling zone in the crypts. While the histological ultrastructure and the immune cell composition of human palatine tonsils has been elaborated in detail, the molecular identity of the diverse stromal cell compartments including FRC and the specialized lymphoepithelium remains largely unknown. Here, we have employed single cell transcriptomics and extensive flow cytometric analyses to unveil the molecular identity of tonsillar cells and to disentangle the heterogeneity of fibroblast and epithelial cell subsets in palatine tonsils. Our results reveal a remarkable conservation of stromal cell organization and molecularly-defined subsets in infant and adult human palatine tonsils.

2023-03-30 | E-MTAB-11715 | biostudies-arrayexpress

Single cell RNAseq of immune cells from human palatine tonsils

2025-03-31 | E-MTAB-14987 | biostudies-arrayexpress

Single cell RNAseq of immune cells from human palatine tonsils

Project description:Single cell RNAseq of immune cells from human palatine tonsils

| PRJEB87674 | ENA

Bulk RNA sequencing of interfollicular Tfh cells isolated from the palatine tonsils of recurrent tonsillitis and IgA nephropathy.

Project description:Immunoglobulin A nephropathy (IgAN) is a chronic glomerular disease characterized by mesangial IgA deposition, which can progress to end-stage renal failure. Tonsillectomy is used as a therapeutic intervention to slow disease progression and provide early clinical benefit. However, the immune mechanisms within the palatine tonsils that contribute to IgAN pathogenesis remain incompletely understood. To define the tonsillar immune environment that regulates pathological antibody production, we analyzed T cell subsets in relation to renal function. Interfollicular T follicular helper (IF-Tfh) cells (CD3+CD4+CD8-PD-1loCXCR5lo) were significantly expanded in IgAN tonsils compared with disease controls and strongly correlated with clinical markers of renal abnormalities. Transcriptomic analysis of IF-Tfh cells from IgAN tonsils revealed a distinct gene expression profile enriched for effector memory T cell–like features associated with kidney impairment.

2026-02-13 | GSE315711 | GEO

Transcription profiling of human CD4 T cell subsets isolated from peripheral blood and palatine tonsils

Project description:Comparatative gene expression analysis for CD4 T cell subsets isolated from peripheral blood and palatine tonsils

2006-07-01 | E-MEXP-750 | biostudies-arrayexpress

Expression data of human stromal cells isolated from tonsils

Project description:Expression data of human stromal cells isolated from tonsils

| PRJNA662776 | ENA

Single cell RNAseq of immune and stromal cells in murine lung cancer

Project description:Single cell RNAseq of immune and stromal cells in murine lung cancer

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Single cell RNAseq of immune and stromal cells from human lymph nodes

Project description:Single cell RNAseq of immune and stromal cells from human lymph nodes

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Single cell RNAseq of immune and stromal cells from human lymph nodes

Project description:B cell-interacting reticular cells (BRC) form transcriptionally and topologically stable immune-interacting microenvironments that direct efficient humoral immunity. While several immune niche factors have been elucidated, the cues sustaining BRC function and topology across activation states remain unclear. Here, we employed single cell RNA-sequencing of human lymph node stromal cells and immune cells to analyse local BRC-immune cell interactions and compare them across SLOs and species from additional datasets. Shared BRC subsets were imprinted by tissue-specific gene signatures, but also expressed functionally convergent niche factors that directed regionalized leukocyte composition. Local BRC-immune cell interactions sustained BRC subset identity via immune cell-provided maturation factors. Bidirectional signalling programs were independent of activation state and mirrored across murine and human tissues. Collectively, our data reveal a conserved set of feedforward BRC-immune cell circuits that sustain topologically-organized, functional niches across inflammatory states, lymphoid organs and species.

2023-03-30 | E-MTAB-11710 | biostudies-arrayexpress

Gene expression profile at single cell level of stromal cells from fresh and cryopreserved tonsils and lymph node

Project description:Non-hematopoietic lymph node stromal cells (LNSCs) regulate lymphocyte trafficking, survival, and function for key roles in host defense, autoimmunity, alloimmunity, and lymphoproliferative disorders. However, study of LNSCs in human diseases is complicated by a dependence on viable lymphoid tissues, which are most often excised prior to establishment of a specific diagnosis. Here, we demonstrate that cryopreservation can be used to bank lymphoid tissue for the study of LNSCs in human disease. Using human tonsils, lymphoid tissue fragments were cryopreserved for subsequent enzymatic digestion and recovery of viable non-hematopoietic cells. Flow cytometry and single-cell transcriptomics identified comparable proportions of LNSC cell types in fresh and cryopreserved tissue. Moreover, cryopreservation had little effect on transcriptional profiles, which showed significant overlap between tonsils and lymph nodes. The presence and spatial distribution of transcriptionally defined cell types was confirmed by in situ analyses. Our broadly applicable approach promises to greatly enable research into the roles of LNSC in human disease.

2023-05-16 | GSE224661 | GEO

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