High-throughput Ig and TCR repertoire single-cell sequencing analysis in rhesus macaques
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA744766 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Recent advancements in microfluidics and high-throughput sequencing technologies have enabled recovery of paired heavy- and light- chain of immunoglobulins (Ig) and VDJ- and VJ- chains of T cell receptors (TCR) from thousands of single cells simultaneously. Due to the complexity of these polyclonal receptors, for many species single-cell immune repertoire sequencing assays are not yet commercially available. Rhesus macaques are one of the most well-studied model organisms of the human adaptive immune response; application of these new immune repertoire sequencing assays is highly relevant to vaccine and infectious disease studies. Here we use custom designed primers to target and enrich for every known Ig and TCR chain and isotype in the rhesus macaque animal model. We sequenced more than 110,000 cell barcodes from rhesus macaque repertoires using PBMC, splenocyte, and FACS-sorted T and B cell. We were able to recover every Ig and TCR isotype, measure clonal expansion in proliferating T cells, and pair repertoires with gene expression profiles of single cells. Our results establish the ability to perform single-cell based immune repertoire analysis in rhesus macaque.
2021-11-18 | GSE179722 | GEO
Project description:Rhesus macaques vaccinated by rhesus cytomegalovirus vectors expressing simian immunodeficiency virus proteins (RhCMV/SIV) activate gene expression signature associated with IL15. To examine the gene expression signature activated by IL15, we performed longitudinal examinations of rhesus macaques during IL15 treament.
2021-06-28 | GSE160577 | GEO
Project description:This SuperSeries is composed of the following subset Series: GSE33090: Dramatic effects of social behavior on gene regulation in rhesus macaques [Individual_expression] GSE34127: Dramatic effects of social behavior on gene regulation in rhesus macaques [Cell type_expression] GSE34128: Dramatic effects of social behavior on gene regulation in rhesus macaques [Bisulfite_seq] Refer to individual Series
2012-02-01 | E-GEOD-34129 | biostudies-arrayexpress
Project description:Temporal analysis of T-cell receptor (TCR) repertoire has been used to monitor treatment-induced changes in antigen-specific T cells in patients with cancer. However, lack of experimental model that allows the temporal analysis of TCR repertoire in same individual in homogeneous population limit the understanding of causal relationship between changes in TCR repertoire and antitumor responses. A bilateral tumor model, in which tumor cells were inoculated into the bilateral backs of mice, can be used for temporal analysis in TCR repertoire. In this study, we examined the prerequisite for this strategy: TCR repertoire are conserved between the bilateral tumor with same growth rate. The bilateral tumors with equivalent tumor size and draining lymph nodes (dLN) were collected 13 days after the tumor inoculation to analyze the TCR repertoire of CD4+ and CD8+ T cells. Most of the tumor-infiltrating T-cell clones were highly conserved between the bilateral tumors, and the extent of clonal expansion was equivalent. In addition, the similarity between bilateral tumors were equivalent to the heterogeneity in one side of the tumor. The similarity of TCR repertoire in the bilateral dLN was markedly lower than that of the tumor, suggesting that tumor-reactive T-cell clones induced independently in each dLN were integrated during recirculation and then infiltrated the tumor. These findings suggest that our bilateral tumor model is suitable for temporal monitoring of TCR repertoire to evaluate temporal and treatment-induced changes in tumor-reactive T-cell clones.
2021-05-12 | GSE174225 | GEO
Project description:TCR repertoire sequencing from WT and Malt1PD mice
| PRJEB34151 | ENA
Project description:BCR repertoire sequencing of isotype-switched memory B cells Aim of the study was to explore the differences of Ig repertoires of isotype-switched memory B cells between spleen and bone marrow compartments.
2020-04-24 | GSE139835 | GEO
Project description:Analysis of gene expression differences in relationship to dominance rank in female rhesus macaques. RNA obtained from isolated peripheral blood mononuclear cells from 49 adult female rhesus macaques of dominance ranks 1 (high) to 5 (low) across 10 social groups. Total 100 samples = (47 individuals X 2 replicates) + (2 individuals X 3 replicates)
2012-02-01 | E-GEOD-33090 | biostudies-arrayexpress
Project description:To determine the blood transcriptional response to intravenous (IV) BCG vaccination in rhesus macaques and identify correlates of vaccine-mediated protection against Mycobacterium tuberculosis (Mtb) challenge.
2023-06-19 | GSE218270 | GEO
Project description:Gene expression profiling was carried out on peripheral blood mononuclear cell mRNA samples collected from 4 mo old rhesus macaques subject to maternal rearing, peer rearing, or surrogate peer rearing. The primary research question is whether gene expression differs as a function of early rearing conditions. Gene expression profiling was carried out on peripheral blood mononuclear cell mRNA samples collected from 4 mo old rhesus macaques subject to maternal rearing, peer rearing, or surrogate peer rearing. The primary research question is whether gene expression differs as a function of early rearing conditions.
2012-12-03 | E-GEOD-35850 | biostudies-arrayexpress
Project description:Analysis of gene expression differences in relationship to dominance rank in female rhesus macaques. RNA obtained from 4 cell populations (helper T cells, cytotoxic T cells, monocytes, and B cells) from isolated peripheral blood mononuclear cells sampled from 5 adult female rhesus macaques across 5 different social groups and 5 different dominance ranks [dominance ranks : 1 = high, 5 = low]
2012-02-01 | E-GEOD-34127 | biostudies-arrayexpress