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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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RNAseq data from in vitro-stimulated (24 hours) murine relfl/flCD19-Cre and CD19-Cre splenic B cells purified by magnetic cell separation.

ABSTRACT: RNAseq analysis of CD40 + IgM in vitro-stimulated (24 hours) murine relfl/flCD19-Cre (furtheron designated as REL) and CD19-Cre (furtheron designated as WT) splenic B cells identifies genes regulated by the transcription factor c-REL in activated B cells. Splenic B cells from 12-week old relfl/flCD19-Cre and CD19-Cre littermate mice were isolated by magnetic cell separation from splenic mononuclear cells and stimulated in vitro for 24 hours with anti-CD40 and anti-IgM. RNA was isolated and submitted for RNA-sequencing on an Illumina HiSeq2000 instrument for 30 million single-ended reads.

ORGANISM(S): Mus musculus

SUBMITTER: Ulf Klein

PROVIDER: E-GEOD-58973 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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RNAseq data from in vitro-stimulated (6 hours) murine relfl/flCD19-Cre and CD19-Cre splenic B cells purified by magnetic cell separation (REL6)

Project description:RNAseq analysis of CD40 + IgM in vitro-stimulated (6 hours) murine relfl/flCD19-Cre (furtheron designated as REL) and CD19-Cre (furtheron designated as WT) splenic B cells identifies genes regulated by the transcription factor c-REL in activated B cells. Splenic B cells from 12-week old relfl/flCD19-Cre and CD19-Cre littermate mice were isolated by magnetic cell separation from splenic mononuclear cells and stimulated in vitro for 6 hours with anti-CD40 and anti-IgM. RNA was isolated and submitted for RNA-sequencing on an Illumina HiSeq2000 instrument for 30 million single-ended reads.

2014-07-15 | E-GEOD-58971 | biostudies-arrayexpress

RNAseq data from in vitro-stimulated (6 hours) murine relafl/flCD19-Cre and CD19-Cre splenic B cells purified by magnetic cell separation (RELA)

Project description:RNAseq analysis of CD40 + IgM in vitro-stimulated (6 hours) murine relafl/flCD19-Cre (furtheron designated as RELA) and CD19-Cre (furtheron designated as WT) splenic B cells identifies genes regulated by the transcription factor RELA in activated B cells. Splenic B cells from 12-week old relafl/flCD19-Cre and CD19-Cre littermate mice were isolated by magnetic cell separation from splenic mononuclear cells and stimulated in vitro for 6 hours with anti-CD40 and anti-IgM. RNA was isolated and submitted for RNA-sequencing on an Illumina HiSeq2000 instrument for 30 million single-ended reads.

2014-07-15 | E-GEOD-58972 | biostudies-arrayexpress

RNAseq data from in vitro-stimulated (24 hours) murine relfl/flCD19-Cre and CD19-Cre splenic B cells purified by magnetic cell separation.

Project description:RNAseq analysis of CD40 + IgM in vitro-stimulated (24 hours) murine relfl/flCD19-Cre (furtheron designated as REL) and CD19-Cre (furtheron designated as WT) splenic B cells identifies genes regulated by the transcription factor c-REL in activated B cells.

2014-07-15 | GSE58973 | GEO

RNAseq data from in vitro-stimulated (6 hours) murine relfl/flCD19-Cre and CD19-Cre splenic B cells purified by magnetic cell separation (REL6)

2014-07-15 | GSE58971 | GEO

RNAseq data from in vitro-stimulated (6 hours) murine nfkb2fl/flCD19-Cre and CD19-Cre splenic B cells purified by magnetic cell separation (CD40)

Project description:RNAseq analysis of CD40 in vitro-stimulated (6 hours) murine nfkb2fl/flCD19-Cre (furtheron designated as REL) and CD19-Cre (furtheron designated as WT) splenic B cells identifies genes regulated by the transcription factor NF-kB2 in activated B cells.

2016-02-01 | GSE75762 | GEO

RNAseq data from in vitro-stimulated (6 hours) murine relafl/flCD19-Cre and CD19-Cre splenic B cells purified by magnetic cell separation (RELA)

2014-07-15 | GSE58972 | GEO

RNA-seq data from murine eGFP+ relbfl/flnfkb2fl/flCg1-Cre and Cg1-Cre splenic germinal center B cells purified by fluorescent activated cell sorting.

Project description:RNA-seq analysis of murine eGFP+ relbfl/flnfkb2fl/flCg1-Cre and Cg1-Cre splenic germinal center B cells identifies genes regulated by the transcription factors RELB and p52 (NF-kB2) in germinal center B cells. Germinal center B cells from 12-week old relbfl/flnfkb2fl/flCg1-Cre and Cg1-Cre littermate mice immunized with sheep red blood cells (SRBC) were isolated at day 7 after immunization by flow cytometric sorting from splenic mononuclear cells. RNA was isolated, amplified and submitted for RNA-sequencing on an Illumina HiSeq2500 instrument for 35-40 million 2x50 paired-ended reads.

2016-07-01 | E-GEOD-77374 | biostudies-arrayexpress

Genetically-driven target tissue over-expression of CD40: A novel mechanism in autoimmune disease

Project description:The CD40 gene, an important immune regulatory gene, is also expressed and functional on non-myeloid derived cells, many of which are targets for tissue specific autoimmune diseases, including d thyroid follicular cells in Graves’ disease (GD). Whether target tissue CD40 expression plays a role in autoimmune disease etiology has yet to be determined. Here we show for the first time, that target-tissue over-expression of CD40 plays a key role in the etiology of autoimmunity. Using a murine model of GD, we demonstrated that thyroidal CD40 over-expression augmented the production of thyroid specific antibodies, resulting in more severe experimental autoimmune Graves’ disease (EAGD), whereas deletion of thyroidal CD40 suppressed disease. Using transcriptome and immune-pathway analyses we showed that in both EAGD mouse thyroids and human primary thyrocytes, CD40 mediates this effect by activating downstream cytokines and chemokines, most notably IL-6. To translate these findings into therapy, we blocked IL-6 during EAGD induction in the setting of thyroidal CD40 over-expression, and showed decreased levels of TSHR stimulating antibodies and frequency of disease. We conclude that target tissue over-expression of CD40 plays a key role in the etiology of organ specific autoimmune disease. CD40 in Thyroid Autoimmunity: 1) Incubation of human thyroid cells with G28.5, a CD40 stimulating antibody, and purification of RNA, conversion to cDNA, measurement of mRNA expression using RNAseq. 2) Removal of thyroid tissues from CD40 over-expressing transgenic mice and wild type mice, purification of RNA, conversion to cDNA measurement of mRNA expression using RNAseq.

2012-10-03 | E-GEOD-39081 | biostudies-arrayexpress

RNA profiling for mouse B10+ cells and B10- B cells

Project description:we used genome-wide transcriptome analysis to profile the mRNA, long noncoding RNA (lncRNA), and microRNA (miRNA) expression of B10 cells, an antigen-specific Cd1dhiCd5+Cd19hiIl10 competent regulatory B cell. Potential key upstream regulators (including transcription factors, cytokines, trans-membrane receptors, and kinases) for Breg biogenesis and function were identified. B10+ B cells (Cd1dhiCd5+Cd19hiIl10+) and B10- cells (Cd1d-Cd5-Cd19hiIl10-) from mouse splenic B cell were sorted for RNA preparation. Two independent repeats were prepared for RNA-seq

2015-10-29 | E-GEOD-63426 | biostudies-arrayexpress

RNA-seq of in vitro derived B cells

Project description:IFN-γ has been reported to be the ABC-promoting cytokine combined with signaling from IL-21, CD40L, Ag-BCR and TLR7 agonist. Hence, we adopted the in vitro differentiation cocktails (anti-IgM, R848, anti-CD40, IL-21 plus IFN-γ or IL-4) to determine the role of IFN-γ in ABC differentiation. Mouse splenic B cells were purified by negative selection and cultured in the presence of the above cocktails. Compared with IL-4, IFN-γ-polarized cells preferentially differentiated to ABC-like cells. And RNA-seq were performed on IFN-γ-polarized cells and IL-4-polarized cells.

2023-02-17 | E-MTAB-12569 | biostudies-arrayexpress

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