Similar studies for GEO DataSets (Select 200028736) - GEO DataSets

Select item 2000287361.

(Submitter supplied) compare wild type and Batf-/- B cells activated for 0 1 or 2 days in vitro. WT or Batf deficient B cells were activated in vitro with LPS for 1 or 2 days, or left untreated.

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1261
6 Samples

Download data: CEL

Series

Accession:: GSE28736

ID:: 200028736

PubMed Full text in PMC Similar studies

Select item 2001064272.

BATF regulates the expression of Nfil3, Wnt10a and miR155hg for efficient induction of antibody class switch recombination

(Submitter supplied) BATF functions in both T cells and B cells to control the host response to antigen and promote the production of class switched immunoglobulins. In this study, we demonstrate that BATF expression is increased rapidly, and transiently, immediately following B cell stimulation and use an inducible model of BATF deletion to show that this induction is necessary, and sufficient, to trigger the program of immunoglobulin class switch recombination (CSR). more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
7 Samples

Download data: TXT

Series

Accession:: GSE106427

ID:: 200106427

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001162083.

TET enzymes augment AID expression via 5hmC modifications at the Aicda superenhancer

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

Organism:: Mus musculus

Type:: Methylation profiling by high throughput sequencing; Other; Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL17021 GPL16417
83 Samples

Download data: BW

Series

Accession:: GSE116208

ID:: 200116208

PubMed Full text in PMC Similar studies

Select item 2001162074.

TET enzymes augment AID expression via 5hmC modifications at the Aicda superenhancer [Tet2-ChIP-seq]

(Submitter supplied) TET enzymes are dioxygenases that promote DNA demethylation by oxidizing the methyl group of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC). Here we report a close correspondence between 5hmC-marked regions, chromatin accessibility and enhancer activity in B cells, and a strong enrichment for consensus binding motifs for basic region-leucine zipper (bZIP) transcription factors at TET-responsive genomic regions. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17021
2 Samples

Download data: BW

Series

Accession:: GSE116207

ID:: 200116207

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001162065.

TET enzymes augment AID expression via 5hmC modifications at the Aicda superenhancer [H3K27ac_ChIP-seq]

(Submitter supplied) TET enzymes are dioxygenases that promote DNA demethylation by oxidizing the methyl group of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC). Here we report a close correspondence between 5hmC-marked regions, chromatin accessibility and enhancer activity in B cells, and a strong enrichment for consensus binding motifs for basic region-leucine zipper (bZIP) transcription factors at TET-responsive genomic regions. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17021
8 Samples

Download data: TXT

Series

Accession:: GSE116206

ID:: 200116206

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001162056.

TET enzymes augment AID expression via 5hmC modifications at the Aicda superenhancer [BATF_ChIP-seq]

(Submitter supplied) TET enzymes are dioxygenases that promote DNA demethylation by oxidizing the methyl group of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC). Here we report a close correspondence between 5hmC-marked regions, chromatin accessibility and enhancer activity in B cells, and a strong enrichment for consensus binding motifs for basic region-leucine zipper (bZIP) transcription factors at TET-responsive genomic regions. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17021
5 Samples

Download data: BW, CSV

Series

Accession:: GSE116205

ID:: 200116205

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001162047.

TET enzymes augment AID expression via 5hmC modifications at the Aicda superenhancer [RNA-seq]

(Submitter supplied) TET enzymes are dioxygenases that promote DNA demethylation by oxidizing the methyl group of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC). Here we report a close correspondence between 5hmC-marked regions, chromatin accessibility and enhancer activity in B cells, and a strong enrichment for consensus binding motifs for basic region-leucine zipper (bZIP) transcription factors at TET-responsive genomic regions. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
20 Samples

Download data: TXT

Series

Accession:: GSE116204

ID:: 200116204

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001162038.

TET enzymes augment AID expression via 5hmC modifications at the Aicda superenhancer [ATAC-seq]

(Submitter supplied) TET enzymes are dioxygenases that promote DNA demethylation by oxidizing the methyl group of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC). Here we report a close correspondence between 5hmC-marked regions, chromatin accessibility and enhancer activity in B cells, and a strong enrichment for consensus binding motifs for basic region-leucine zipper (bZIP) transcription factors at TET-responsive genomic regions. more...

Organism:: Mus musculus

Type:: Other

Platform:: GPL17021
16 Samples

Download data: TXT

Series

Accession:: GSE116203

ID:: 200116203

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001162029.

TET enzymes augment AID expression via 5hmC modifications at the Aicda superenhancer [BS-seq]

(Submitter supplied) TET enzymes are dioxygenases that promote DNA demethylation by oxidizing the methyl group of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC). Here we report a close correspondence between 5hmC-marked regions, chromatin accessibility and enhancer activity in B cells, and a strong enrichment for consensus binding motifs for basic region-leucine zipper (bZIP) transcription factors at TET-responsive genomic regions. more...

Organism:: Mus musculus

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL16417
8 Samples

Download data: TXT

Series

Accession:: GSE116202

ID:: 200116202

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20011620110.

TET enzymes augment AID expression via 5hmC modifications at the Aicda superenhancer [CMS-IP]

(Submitter supplied) TET enzymes are dioxygenases that promote DNA demethylation by oxidizing the methyl group of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC). Here we report a close correspondence between 5hmC-marked regions, chromatin accessibility and enhancer activity in B cells, and a strong enrichment for consensus binding motifs for basic region-leucine zipper (bZIP) transcription factors at TET-responsive genomic regions. more...

Organism:: Mus musculus

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL17021
24 Samples

Download data: CSV

Series

Accession:: GSE116201

ID:: 200116201

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20007903911.

Store-operated Ca2+ entry in follicular T cells controls humoral immune responses and autoimmunity

(Submitter supplied) T follicular helper (TFH) cells promote affinity maturation of B cells in germinal centers (GCs), whereas T follicular regulatory (TFR) cells limit GC reaction. Store-operated Ca2+ entry (SOCE) through Ca2+ release-activated Ca2+ (CRAC) channels mediated by STIM and ORAI proteins is a fundamental signaling pathway in T lymphocytes. Here we show that SOCE is required for the differentiation and function of both TFH and TFR cells. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
8 Samples

Download data: TXT

Series

Accession:: GSE79039

ID:: 200079039

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20004660812.

Transcriptional regulation of germinal center B and plasma cell fates by dynamical control of IRF4

(Submitter supplied) The transcription factor IRF4 regulates immunoglobulin class switch recombination and plasma cell differentiation. Its differing concentrations appear to regulate mutually antagonistic programs of B and plasma cell gene expression. We show IRF4 to be also required for generation of germinal center (GC) B cells. Its transient expression in vivo induced the expression of key GC genes including Bcl6 and Aicda. more...

Organism:: Mus musculus

Type:: Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL9250 GPL1261
41 Samples

Download data: BED, CEL, FASTA

Series

Accession:: GSE46608

ID:: 200046608

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20004660713.

Transcriptional regulation of germinal center B and plasma cell fates by dynamical control of IRF4 (ChIP-seq)

(Submitter supplied) Temporal analysis of Irf4 and PU.1 genome binding during B cell activation and differentiation in vitro using antigen (NP-Ficoll) CD40L and IL-2/4/5 cytokines (see Molecular Systems Biology 7:495 for details of cellular system). The results provide insight in the target genes and binding specificity of IRF4 and PU.1 during coordination of different programs of B cell differentiation. Regrettably three of the FASTQ raw sequence files in our study were corrupted during storage. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL9250
11 Samples

Download data: BED, FASTA

Series

Accession:: GSE46607

ID:: 200046607

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20004660614.

Transcriptional regulation of germinal center B and plasma cell fates by dynamical control of IRF4 (expression)

(Submitter supplied) Temporal analysis of B cell activation in vitro using CD40L and IL-2/4/5 cytokines in wild type Irf4+/+ B cells or in mutant Irf4-/- B cells harboring a tet-inducible allele of Irf4. IRF4 expression was restored, or not, in the Irf4-/- background by culturing in the presence of low or high concentrations of doxycycline. The results provide insight in the role of IRF4 expression levels in coordinating different programs of B cell differentiation.

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1261
30 Samples

Download data: CEL

Series

Accession:: GSE46606

ID:: 200046606

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20013508715.

Bach2 deficiency leads to spontaneous expansion of IL-4-producing T follicular helper cells and autoimmunity

(Submitter supplied) The transcription factor Bach2 is a critical negative regulator of Tfh cell differentiation, especially IL-4 subset. Tfh cells from the mesenteric lymph nodes of WT and Bach2 CD4 conditional KO mice were collected to process the Rna-seq. Mechanistically, Bach2 may limit abnormal IL-4-produicng Tfh cell formation by repressing c-Maf, CXCR5 and IL-4.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21273
6 Samples

Download data: CSV

Series

Accession:: GSE135087

ID:: 200135087

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20005651416.

Gene expression changes in CD4+ thymocytes upon removal of Cullin3

(Submitter supplied) We report gene expression changes in Cul3 deficient thymic CD4+ T cells We used microarrays to detail the global programme of gene expression changes upon removal of Cul3 during thymic development

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1261
4 Samples

Download data: CEL

Series

Accession:: GSE56514

ID:: 200056514

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20005421517.

Comparison of gene expression profiles of naïve and in vitro effector CD8+ T cells from wild-type and BATF-/- mice

(Submitter supplied) The transcription factor BATF is required for Th17 and TFH differentiation. Here, we show that BATF also has a fundamental role in regulating effector CD8+ T cell differentiation. BATF-deficient CD8+ T cells show profound defects in effector expansion and undergo proliferative and metabolic catastrophe early after antigen encounter. BATF, together with IRF4 and Jun proteins, binds to and promotes early expression of genes encoding lineage-specific transcription-factors (T-bet and Blimp-1) and cytokine receptors, while paradoxically repressing genes encoding effector molecules (IFNg and granzyme B). more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1261
13 Samples

Download data: CEL

Series

Accession:: GSE54215

ID:: 200054215

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20005419118.

ChIP-Seq analysis of BATF, IRF4, the Jun proteins, and histone modifications in effector CD8+ T cells

(Submitter supplied) The transcription factor BATF is required for Th17 and TFH differentiation. Here, we show that BATF also has a fundamental role in regulating effector CD8+ T cell differentiation. BATF-deficient CD8+ T cells show profound defects in effector expansion and undergo proliferative and metabolic catastrophe early after antigen encounter. BATF, together with IRF4 and Jun proteins, binds to and promotes early expression of genes encoding lineage-specific transcription-factors (T-bet and Blimp-1) and cytokine receptors, while paradoxically repressing genes encoding effector molecules (IFNg and granzyme B). more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13112
23 Samples

Download data: BW

Series

Accession:: GSE54191

ID:: 200054191

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012816619.

Transcription factors IRF8 and PU.1 are required for follicular B cell development and BCL6-driven germinal center responses

(Submitter supplied) The IRF and Ets families of transcription factors regulate the expression of a range of genes involved in immune cell development and function. However, the understanding of molecular mechanisms of each family member has been limited due to their redundancy and broad effects on multiple lineages of cells. Here, we report that double deletion of floxed Irf8 and Spi1 (encoding PU.1) by Mb1-Cre (designated DKO mice) in the B cell lineage resulted in severe defects in the development of follicular and germinal center (GC) B cells. more...