Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression profiling of B cells subsets

ABSTRACT: Terminal B cell differentiation into antibody-secreting cells (ASC) is a critical process for adaptive immune responses. Although many efforts have been made in the recent years to decipher the cellular and molecular events sustaining this differentiation, both in mouse and human models, several key steps still need further elucidation. We used a combined RNA-seq and ATAC-seq approach to decipher the chromatin and gene expression events driving ASC differentiation from naive or memory B cells. Out goal with the dataset was to explore the divergent molecular properties of naive and memory B cells that sustain their differential abilities to differentiate into ASC.

ORGANISM(S): Homo sapiens

PROVIDER: GSE190456 | GEO | 2022/12/31

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Chromatin accessibility profiling of B cell subsets

Project description:Terminal B cell differentiation into antibody-secreting cells (ASC) is a critical process for adaptive immune responses. Although many efforts have been made in the recent years to decipher the cellular and molecular events sustaining this differentiation, both in mouse and human models, several key steps still need further elucidation. We used a combined RNA-seq and ATAC-seq approach to decipher the chromatin and gene expression events driving ASC differentiation from naive or memory B cells. Out goal with the dataset was to explore the divergent molecular properties of naive and memory B cells that sustain their differential abilities to differentiate into ASC.

2022-12-31 | GSE190457 | GEO

Single-cell analysis reveals dynamics of human B cell differentiation and identifies novel B and antibody-secreting cell intermediates

Project description:Differentiation of B cells into antibody-secreting cells (ASCs) is a key process to generate protective humoral immunity. A detailed understanding of the cues controlling ASC differentiation is important to devise strategies to modulate antibody formation. Here, we dissected differentiation trajectories of human naive B cells into ASCs using single-cell RNA sequencing. By comparing transcriptomes of B cells at different stages of differentiation from an in vitro model with ex vivo B cells and ASCs, we uncovered a novel pre-ASC population present ex vivo in lymphoid tissues. For the first time, a germinal-center-like population is identified in vitro from human naive B cells and possibly progresses into a memory B cell population through an alternative route of differentiation, thus recapitulating in vivo human GC reactions. Our work allows further detailed characterization of human B cell differentiation into ASCs or memory B cells in both healthy and diseased conditions.

2022-09-27 | GSE214265 | GEO

Chromatin accessibility profiling of terminal B cell differentiation [ATAC-Seq]

Project description:The terminal differentiation of B cells into antibody-secreting cells (ASCs) is a critical component of adaptive immune responses. Using our in vitro differentiation system, we combined RNA sequencing with ATAC-seq to characterize genomic events driving the ASC differentiation of human primary naive B cells. After an initial response to IL-4, cells that committed to an ASC fate downregulated the CD23 marker and IL-4 signaling, whereas cells that maintained IL-4 signaling did not differentiate. As demonstrated in the mouse, downregulation of the human ubiquitin ligase CBLB was required to free IRF4 from proteasomal degradation and produce levels needed for ASC differentiation. Our results evidenced two previously undocumented mechanisms driving human terminal B cell differentiation. Lastly, we showed that CD23-negative cells (i) carried the imprint of their previous activated B-cell status, (ii) were precursors of plasmablasts, and (iii) had a similar phenotype to in vivo pre-plasmablasts.

2020-11-08 | GSE136989 | GEO

Expression profiling of terminal B cell differentiation [RNA-Seq]

2020-11-08 | GSE136988 | GEO

Characterization of gene expression in antibody secreting cells

Project description:The CD19 positive antibody secreting cells (ASC) in both bone marrow (BM) have the capacity to provide immune memory in addition to cells traditionally considered long-lived, the CD19-negative BM ASC. We performed flow cytometry (FCM) immunophenotyping, fluorescence-activated cell sorting (FACS) for cell subset isolation, ELISpot assays detecting the isotype of antibody secretion as well as antibodies against vaccine derived antigens, and comparative gene expression analyses of CD19- ASC, CD19+ ASC, CD20- B cells, and CD20+ B cells from BM. The findings may aid in the understanding of the differential cell subsets created through vaccination and lead to improved vaccine strategies and production. FACS sorted tissue B cells and antibody secreting cell subset gene expression.

2018-12-03 | GSE107683 | GEO

ASC controls T-bet-dependent CTL differentiation and defines transplant outcome independent of the inflammasome

Project description:The adaptor protein ASC is known to facilitate caspase-1 activation essential for innate host immunity via the formation of the inflammasome complex - a multi-protein structure responsible for processing IL-1beta and IL-18 to their active moieties. Here we demonstrate that ASC-deficient CD8+ T cells fail to induce graft-versus-host disease (GVHD) and have impaired capacity for graft rejection and graft-versus-leukemia (GVL) activity. These effects are the result of an inability to differentiate into fully cytolytic, granzyme B-expressing effector cells, with a developmental bias instead towards CD127+KLRG1- memory CD8+ T cells. These alterations in differentiation are inflammasome-independent, since GVHD lethality and CTL differentiation are not altered in recipients of caspase-1-deficient T cells. We demonstrate that ASC binds to T-bet in CD8+ T and in the absence of ASC, the binding of T-bet to the granzyme B promoter is impaired. Thus, the inhibition of ASC represents an attractive therapeutic target to manipulate transplant outcomes. Single colour, Illumina MouseRef-8 v2.0 Beadarrays.

2016-04-01 | E-GEOD-78755 | biostudies-arrayexpress

Protein landscape for human B-cell differentiation

Project description:The present project reports the quantitative proteome of different B-cell populations corresponding to the last steps of B-cell differentiation (i.e., naive (N), centroblast (CB), centrocytes (CC), memory cells (M), plasmablasts (PC).

2021-05-03 | PXD006191 | Pride

RNA-seq time course analysis of in vitro differentiated antibody-secreting cells

Project description:We examined the transcriptional changes that occur as Antibody Secreting Cells (ASC) differentiate and mature using an in vitro culture system. ASC were profiled directly post isolation and at time points weekly out to 48 days in culture. These data reveal how the long-lived ASC transcriptome matures over time.

2021-12-17 | GSE190693 | GEO

ATAC-seq time course analysis of in vitro differentiated antibody-secreting cells

Project description:We examined the chromatin accessibility changes that occur as antibody-secreting cells (ASC) differentiate and mature using an in vitro culture system. ASC were profiled directly post isolation and at time points weekly out to 14 days in culture. These data reveal how the long-lived ASC accessible chromatin matures over time.

2022-01-14 | GSE193644 | GEO

CD8+ T-cell memory bears the transcriptional imprint of progressive differentiation

Project description:The generation of CD8+ T-cell memory is an important aim of immunization. While several distinct subsets of CD8+ T-cell memory have been described, the lineage relationships between effector (EFF), effector memory (EM) and central memory (CM) T cells remain contentious. Specifically, there is contradictory experimental evidence to support both the linear (Naive>EFF>EM>CM) and progressive differentiation (Naive>CM>EM>EFF) models. In this study, we applied a systems biology approach to examine global transcriptional relationships between the three major CD8+ T cell subsets arising endogenously as a result of vaccination with three different prime-boost vaccine regimens. Differential gene expression analysis and principle component analysis revealed that central memory cells were more closely related to naive T cells than both effector memory and effector cells. When the transcriptional relationships between subsets were enriched in an unbiased fashion with known global transcriptional changes that result when T-cells repeatedly encounter antigen, our analysis favored a model whereby cumulative antigenic stimulation drives differentiation specifically from Naive > CM > EM > EFF. These findings provide an insight into the lineage relationship between mature CD8+ T-cell subsets and will help in the rational design of vaccines aimed at generating effective immune responses against infections and cancer. Effector (EFF), effector memory (EM), central memory (CM) and naive CD8+ T cells from mice spleen. Memory subset arise endogenously as a result of vaccination with three different prime-boost vaccine regimens: DNA-rAd5, rAd5-rAd5 and rAd5-rLCMV.

2013-08-01 | E-GEOD-42459 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data