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Chromatin accessibility profile at the single cell level of splenic LCMV-specific B cells in acute versus chronic LCMV infection [scATAC-seq]

ABSTRACT: Chromatin accessibility profile at the single cell level of splenic LCMV-specific B cells in acute versus chronic LCMV infection [scATAC-seq]

PROVIDER: PRJNA978113 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23600767.fastq.gz	Fastqsanger.gz
	SRR23600767_1.fastq.gz	Fastqsanger.gz
	SRR23600767_2.fastq.gz	Fastqsanger.gz
	SRR23600768.fastq.gz	Fastqsanger.gz
	SRR23600768_1.fastq.gz	Fastqsanger.gz

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Chromatin accessibility profile at the single cell level of splenic LCMV-specific B cells in acute versus chronic LCMV infection [scATAC-seq]

Project description:Chronic viral infection disrupts memory B cell development. We used single cell ATAC sequencing (scATAC-seq) to analyze chromatin accessibility in antigen-specific B cells responding to acute versus chronic LCMV infection.

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Splenic LCMV-specific B cells in acute versus chronic LCMV infection

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Gene expression profile at the single cell level of splenic LCMV-specific B cells in acute versus chronic LCMV infection [scRNA-seq, CITE-seq]

Project description:Chronic viral infection disrupts memory B cell development. We used single cell RNA sequencing (scRNA-seq) to analyze the diversity of antigen-specific B cells responding to acute versus chronic LCMV infection.

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Chromatin accessibility profile of splenic LCMV-specific memory B cells following type I or II interferon blockade in acute versus chronic LCMV infection

Project description:Chromatin accessibility profile of splenic LCMV-specific memory B cells following type I or II interferon blockade in acute versus chronic LCMV infection

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Comparison of Trail+/+ versus Trail-/- splenic NK cells from naïve and LCMV-infected mice

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RNA sequencing of splenic reticular cells in healthy and LCMV-infected mice

Project description:We report the transcriptome of subsets of mouse splenic mesenchymal reticular cells and lymph node reticular cells obtained from healthy Ccl19-cre x R26R-EYFP mice on a C57BL/6 background. We also examine splenic reticular cells from these mice infected with lymphocytic choriomeningitis virus (LCMV) strain Armstrong (acute infection) or strain Clone 13 (chronic infection). Subsets of CD45- CD31- Ter119- reticular cells were analyzed including PDPN+ T zone reticular cells (TRC) and MAdCAM-1+ marginal reticular cells (MRC) from spleen and lymph nodes. Additionally from the spleen we analyzed PDPN+ CD140a- cells, PDPN+ EYFP- cells, and EYFP+ red pulp reticular cells (RPRC) in healthy mice. We analyzed TRC, MRC, PDPN+ EYFP- cells, and EYFP+ RPRC from mice infected with LCMV Armstrong or LCMV Clone-13 on day 8 or on day 30 after infection. Our study represents the first detailed analysis of splenic reticular cell transcriptomes in healthy and LCMV-infected mice, with biologic replicates, generated by RNA-sequencing. We find substantial differential gene expression across subsets of splenic and lymph node reticular cells. We reveal significant changes in gene expression induced after virus infection that differ markedly with disease.

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Gene expression profile at the single cell level of splenic LCMV-specific B cells in acute versus chronic LCMV infection [scRNA-seq, CITE-seq]

Project description:Gene expression profile at the single cell level of splenic LCMV-specific B cells in acute versus chronic LCMV infection [scRNA-seq, CITE-seq]

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Project description:Dynamics of interferon signalling impact the adaptive immune response. We used ATAC sequencing (ATAC-seq) to analyze chromatin accessibility in memory B cells from mice infected with acute or chronic LCMV infection, treated with type I or type II interferon blocking antibodies.

2024-02-17 | GSE226485 | GEO

Comparison of Trail+/+ versus Trail-/- splenic NK cells from naïve and LCMV-infected mice

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