GEO DataSets

(Submitter supplied) The cell fate decisions between plasmablasts (PBs), germinal center B cells (GCBCs) and non-GC-derived early memory B cells (eMBCs) during early B cell activation determine the outcome of the immune responses to pathogens and vaccines. To characterize these poorly understood lineage choices, we dissected the early B cell responses to T-dependent antigen in mice by single-cell RNA-sequencing. Early after immunization, a homogenous population of activated precursors (APs) gave rise to a transient wave of PBs, followed a day later by the emergence of the first GCBCs, with the transcriptomes of both rapidly diverging from that of APs. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL21626 GPL17021

38 Samples

Download data: BW, H5, RDS, TXT

(Submitter supplied) The cell fate decisions between plasmablasts (PBs), germinal center B cells (GCBCs) and non-GC-derived memory B cells (MBCs) during early B cell activation determine the outcome of the immune responses to pathogens and vaccines. In this study, we dissected these poorly characterized lineage choices by single-cell RNA-sequencing. Early after immunization, a homogenous population of activated precursors (APs) gave rise to a transient wave of PBs, followed a day later by the emergence of the first GCBCs, with the transcriptomes of both rapidly diverging from that of APs. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30172

16 Samples

Download data: TXT

(Submitter supplied) Germinal centers (GCs) are sites of antibody affinity maturation and memory B cell generation. Follicular dendritic cells (FDCs) form a dense stromal network within GCs, but the full extent of their supportive activity is not understood. Here we showed that FDCs expressed IL4Ra and they reduced IL4 availability in GCs. We used scRNA-seq to examine IL4 actions within the GC and identified a subset of light zone cells marked by high IL4Ra and CD23 and lack of a Myc gene-expression signature. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

6 Samples

Download data: CSV

(Submitter supplied) Memory B cells comprise a heterogenous group of cells that differ in origin, and phenotype. During the early phases of the immune response, activated B cells can differentiate into IgM expressing memory cells, short-lived plasma cells or seed germinal centers (GCs). The memory compartment is subsequently enriched by B cells that have been through several rounds of division and selection in the GC. Here we report on the use of an unbiased lineage tracking approach to explore the origins and properties of memory B cell subsets in mice with an intact immune system. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

37 Samples

Download data: XLSX

(Submitter supplied) The mechanisms involved in the maintenance of memory IgE responses are poorly understood, and the role played by germinal center (GC) IgE cells in these memory responses is particularly unclear. IgE B-cell differentiation is characterized by a transient GC phase, a bias towards the plasma cell (PC) fate, and dependence on sequential switching for the production of high-affinity IgE. We show here that IgE GC B cells are unfit to undergo the conventional GC differentiation program due to impaired B-cell receptor function and increased apoptosis. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6246

30 Samples

Download data: CEL

(Submitter supplied) Humoral responses of mice specifically deleted for Moz (a histone acetyltransferase) or c-Myb (a transcription factor) in B cells were aberrant. RNA-sequencing analysis was performed to assess gene expression differences compared to wild-type controls in germinal center B cells or plasmablasts.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

12 Samples

Download data: TXT

(Submitter supplied) To determine any expresssion changes in cDC2s from WT and CD11c-Cre Notch2f/f mice immunized with sheep red blood cells

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6246

10 Samples

Download data: CEL

(Submitter supplied) A subset of GC B cells that have stopped cycling, upregulated CD38 and downregulated BCL-6 is functionally verified as GC-derived memory B cell precursors (GC-MPs). RNA-seq analyses of the transcriptome were used to probe the developmental trajectory of these cells and their responses to IL-9, a cytokine that is found to drive the memory development from the GC.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

66 Samples

Download data: TXT

(Submitter supplied) Antibody-mediated immunity is initiated by B cell interactions with cognate antigen, followed by differentiation into multiple cell subsets, including plasmablast, memory, and germinal center (GC) cells. B cell differentiation trajectories are determined by specific transcription factors, yet very few mechanisms that determine B cell fate at the early stage of the response have been described. Here, we report an epigenetic mechanism that specifically suppresses the plasmablast genetic program and promotes GC B cell fate commitment. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL24247 GPL19057

25 Samples

Download data: CSV, MTX, TDF, TSV, XLSX

(Submitter supplied) We performed RNA-seq (MARS-seq) on germinal center (GC) light zone and dark zone B cells sorted to purity from freshly dissociated mouse popliteal lymph nodes immunized with NP-KLH for 7 to 14 days. Germinal center B cell subsets were gated as follows: Dump (CD8, CD4, F4/80, Gr-1)- B220+ CD38- GL-7+ FAS+. Dark zone GC cells were in addition CD86lo, CXCR4hi; LZ cells were in addition CD86hi, CXCR4lo. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL19057

50 Samples

Download data: TXT, XLSX

(Submitter supplied) In order to better understand the factors that regulate B cell differentiation upon exposure to antigen, we compares global gene expression profiles from naive B cells with antigen-specific plasma, germinal center, and memory B cells after immunization with the T-dependent antigen, NP-CGG. The memory B cell-enriched transcripts were then compared with memory T cell-enriched and hematopoietic stem cell-enriched transcripts in order to generate a transcriptional profile of self-renewal within the hematopoietic system. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS1695

Platform:

GPL1261

14 Samples

Download data: CEL

Analysis of plasma, germinal center, and memory B cells (mBCs) from animals immunized with the T-dependent antigen, NP-CGG. MBC, memory T (mTCs), and long-term hematopoietic stem cells (Lt-HSCs) undergo self-renewal. Results indicate mBCs share a transcriptional program with mTCs and Lt-HSCs.

Organism:

Mus musculus

Type:

Expression profiling by array, transformed count, 4 cell type sets

Platform:

GPL1261

Series:

GSE4142

14 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18480

24 Samples

Download data

(Submitter supplied) A still unanswered question is what drives the small fraction of activated germinal center (GC) B cells that survive to become long-lived quiescent memory B cells. We found here that a small population of light zone GC cells (CD38intBcl6hi/intEfnb1+) with lower mTORC1 activity favored the memory B cell fate. Constitutively high mTORC1 activity led to defects in formation of the CD38intBcl6hi/intEfnb1+ cells; conversely, decreasing mTORC1 activity resulted in relative enrichment of this memory-prone GC population over the recycling-prone one. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18480

16 Samples

Download data: TXT

(Submitter supplied) A still unanswered question is what drives the small fraction of activated germinal center (GC) B cells that survive to become long-lived quiescent memory B cells. We found here that a small population of light zone GC cells (CD38intBcl6hi/intEfnb1+) with lower mTORC1 activity favored the memory B cell fate. Constitutively high mTORC1 activity led to defects in formation of the CD38intBcl6hi/intEfnb1+ cells; conversely, decreasing mTORC1 activity resulted in relative enrichment of this memory-prone GC population over the recycling-prone one. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18480

8 Samples

Download data: TXT

(Submitter supplied) Human PB B cell subsets are functionally distinct and may derive from different developmental pathways, reflected by their differential gene expression profiles. We used microarrays to detail the global programme of gene expression underlying germinal center transition and functional propensities of individual subsets according to surface receptor and cell adhesion molecule expression.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

20 Samples

Download data: CEL

(Submitter supplied) In a cross-site study we evaluated the performance of ribosomal RNA removal kits from Illumina, Takara/Clontech, Kapa Biosystems, Lexogen, New England Biolabs and Qiagen on intact and degraded RNA samples. We found that all of the kits were capable of performing significant ribosomal depletion, though there were differences in their ease of use. All kits were able to remove ribosomal RNA to below 20% with intact RNA and identify ~14,000 protein coding genes from the Universal Human Reference RNA sample at >1FPKM. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

78 Samples

Download data: TXT

(Submitter supplied) To identify B cell memory in the response against helminths we used a fate-mapping aproach using inducible Cre to label B cells participating in the immune response against Nippostrongylus brasiliensis. We transferred our marked cells into wild-type recipient mice and compared the cells before and after the transfer.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16417

26 Samples

Download data: TSV

(Submitter supplied) PKCb-null (Prkcb-/-) mice are severely immunodeficient. Here we show that mice whose B cells lack PKCb fail to develop germinal centers and plasma cells, which in concert undermine affinity maturation and antibody production in response to immunization. Moreover, Prkcb-/- B cells fail to differentiate into plasma cells in response to viral infection. At a cellular level, we show that activated Prkcb-/- B cells exhibit defective antigen polarization and mTORC1 signaling. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

10 Samples

Download data: TXT

(Submitter supplied) ATAC-seq in murine naive B cells, germinal center B cells, and total B cells stimulated with LPS ex vivo and transduced with empty vector or Ocab (Pou2af1) expression vector.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL24247 GPL17021

20 Samples

Download data: BIGWIG, NARROWPEAK