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Peripheral blood TCR clonotype diversity as an age-associated marker of breast cancer progression (TCR)

ABSTRACT: Peripheral blood TCR clonotype diversity as an age-associated marker of breast cancer progression (TCR)

PROVIDER: PRJNA1087365 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR28336200_1.fastq.gz	Fastqsanger.gz
	SRR28336200_2.fastq.gz	Fastqsanger.gz
	SRR28336300_1.fastq.gz	Fastqsanger.gz
	SRR28336300_2.fastq.gz	Fastqsanger.gz
	SRR28336400_1.fastq.gz	Fastqsanger.gz

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Peripheral blood TCR clonotype diversity as an age-associated marker of breast cancer progression (TCR)

Project description:Immune escape is a prerequisite of tumor growth. We previously described a decline in intratumor activated GZMB+CD8+ T cells and T cell receptor (TCR) clonotype diversity in invasive compared to in situ (DCIS) breast carcinomas implying a role for decreasing TCR diversity in tumor progression. Here, we evaluated peripheral blood TCR clonotype diversity in breast cancer patients diagnosed with DCIS or de novo stage IV disease at different ages. We found that peripheral TCR diversity is associated with clinicopathologic, and peripheral immune status and it correlates with the frequency of CD8+ T cells in DCIS of young patients. These results provide new insights to the role of host immunity and breast cancer development in different aged women.

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Peripheral blood TCR clonotype diversity as an age-associated marker of breast cancer progression

Project description:Peripheral blood TCR clonotype diversity as an age-associated marker of breast cancer progression

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Peripheral blood TCR clonotype diversity as an age-associated marker of breast cancer progression (blood)

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Peripheral blood TCR clonotype diversity as an age-associated marker of breast cancer progression

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

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Single-cell analysis of human MAIT cell transcriptional, functional and clonal diversity [Exp 1]

Project description:MAIT cells are innate-like T cells that recognize microbial metabolites through a semi-invariant T cell receptor (TCR). Major questions remain regarding the extent of human MAIT cell functional and clonal diversity. To address these, we analyzed the single-cell transcriptome and TCR repertoire of blood and liver MAIT cells and developed functional RNA-sequencing (fRNA-seq), a method to integrate function and TCR clonotype at single-cell resolution. MAIT cell clonal diversity was comparable to conventional memory T cells, with private TCR repertoires shared across matched tissues. Baseline functional diversity was low and largely related to tissue site. MAIT cells showed stimulus-specific transcriptional responses in vitro, with cells positioned along gradients of activation. Clonal identity influenced resting and activated transcriptional profiles, but intriguingly was not associated with the capacity to produce IL-17. Overall, MAIT cells show phenotypic and functional diversity according to tissue localization, stimulation environment, and clonotype.

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Single-cell analysis of human MAIT cell transcriptional, functional and clonal diversity [ATAC-seq]

Project description:Mucosal-associated invariant T (MAIT) cells are innate-like T cells that recognize microbial metabolites through a semi-invariant T cell receptor (TCR). Major questions remain regarding the extent of human MAIT cell functional and clonal diversity. To address these, we analyzed the single-cell transcriptome and TCR repertoire of blood and liver MAIT cells and developed functional RNA sequencing, a method to integrate function and TCR clonotype at single-cell resolution. MAIT cell clonal diversity was comparable to conventional memory T cells, with private TCR repertoires shared across matched tissues. Baseline functional diversity was low and largely related to tissue site. MAIT cells showed stimulus-specific transcriptional responses in vitro, with cells positioned along gradients of activation. Clonal identity influenced resting and activated transcriptional profiles but intriguingly was not associated with the capacity to produce IL- 17. Overall, MAIT cells show phenotypic and functional diversity according to tissue localization, stimulation environment and clonotype.

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