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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Expression data from control and LRF-deficient mouse germinal center B cells

ABSTRACT: B cells are indispensable for humoral immunity, as they ultimately give rise to antibody-secreting plasma cells. During T cell-dependent antibody responses, naive B cells form germinal centers (GCs), a distinct histologic structure found in secondary lymphoid organs. Naive B cells become activated upon interaction with T cells and antigen presenting cells, and begin to rapidly proliferate and form the characteristic GC structure. To elucidate the overall effect of LRF loss in the GCB cell transcriptome, gene expression microarray analysis of FACS-sorted GCB cells was performed. LRF Flox/+ mb-1 Cre+ mice were used as a control to normalize the potential effects of Cre recombinase, and four RNA samples for each genotype were used for the analysis. B cell-specific LRF knockout (LRF Flox/Flox mb-1 Cre+) and control (LRF Flox/+ mb-1 Cre+) mice (4 each) were immunized with sheep red blood cells, and GCB cells were FACS-sorted 7 days later.

ORGANISM(S): Mus musculus

SUBMITTER: Takahiro Maeda

PROVIDER: E-GEOD-28449 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Expression data from control and LRF-deficient mouse germinal center B cells

Project description:B cells are indispensable for humoral immunity, as they ultimately give rise to antibody-secreting plasma cells. During T cell-dependent antibody responses, naive B cells form germinal centers (GCs), a distinct histologic structure found in secondary lymphoid organs. Naive B cells become activated upon interaction with T cells and antigen presenting cells, and begin to rapidly proliferate and form the characteristic GC structure. To elucidate the overall effect of LRF loss in the GCB cell transcriptome, gene expression microarray analysis of FACS-sorted GCB cells was performed. LRF Flox/+ mb-1 Cre+ mice were used as a control to normalize the potential effects of Cre recombinase, and four RNA samples for each genotype were used for the analysis.

2011-04-08 | GSE28449 | GEO

Expression data from control and LRF (leukemia/lymphoma related factor)-deficient mouse LT-HSCs

Project description:LRF, which is encoded by the ZBTB7A gene and formerly known as POKEMON (POK erythroid myeloid ontogenic factor), was originally identified as a PLZF (promyelocytic leukemia zinc finger) homologue interacting with BCL6 (B-cell lymphoma 6). LRF is a transcription factor that is broadly expressed in hematopoietic lineage cells, but its expression is particularly high in erythroblasts and germinal center (GC) B-cells. The goal of this study is to assess the effect of LRF loss on the LT-HSC transcriptome. Nine days after injection of adult mice with polyinosinic polycytidylic acid (pIpc) to activate Cre, total RNAs were isolated from double-sorted LT-HSCs from LRF Flox/+ Mx1-Cre+ and LRF Flox/Flox Mx1-Cre+ mice and processed for microarray analysis. We performed gene expression microarray analysis of FACS-sorted LT-HSCs (LSK IL7Ra-Flt3-CD150+CD48-) to assess the effect of Lrf loss on the LT-HSC transcriptome. Zbtb7a Flox/+ Mx1-Cre+ mice were used as a control to normalize the potential effects of Cre recombinase. LT-HSCs were FACS-sorted from three Lrf knockout (Zbtb7a Flox/Flox Mx1-Cre+) and two control (Zbtb7a Flox/+ Mx1-Cre+) mice, nine days after the first pIpC injection.

2012-10-26 | E-GEOD-41839 | biostudies-arrayexpress

Expression data from control and LRF (leukemia/lymphoma related factor)-deficient mouse LT-HSCs

2012-10-26 | GSE41839 | GEO

RNA-seq of mouse pancreatic pericytes from MyD88-deficient and control mice

Project description:To define pericytic MyD88-dependent expression of cytokines and other immune mediators, pancreatic pericytes were isolated based on their YFP-labeling from Nkx3.2-Cre;EYFP and Nkx3.2-Cre;EYFP;MyD88 flox/flox transgenic mice.

2023-12-31 | E-MTAB-13639 | biostudies-arrayexpress

Non-tumor/tumor intestinal tissue of control or intestine-specific HAI-1 deficient Apc(Min/+) mice

Project description:To analyse roles of HAI-1/Spint1 in intestinal tumorigenesis, we examined the effect of intestine-specific deletion of Spint1 gene on Apc(Min/+) mice. The loss of Hai-1/Spint1 significantly accelerated tumor formation in ApcMin/+ mice and shortened their survival periods. Mouse small intestine tumor tissue or background mucosa lacking macroscopically visible tumors were proceeded to RNA extraction and hybridization on microarrays (Affymetrix Mouse Genome 430 2.0 Array). Non-tumor or tumor intestinal mucosa tissues of Apc (Min/+)/Spint1 (flox/flox) mice and non-tumor or tumor intestinal mucosa tissues of Apc (Min/+)/Spint1 (flox/flox)/Vil-Cre mice were analysed. The experiment was repeated respectively.

2013-04-01 | E-GEOD-40856 | biostudies-arrayexpress

The proteomic study on kidney-specific Tmod1 knockout mice

Project description:We performed proteomic analyses on the kidneys of Tmod1 flox/flox/Ksp-Cre- (TF) and Tmod1 flox/flox/Ksp-Cre+ (TFK) mice.

2019-06-10 | MSV000083953 | MassIVE

Transcription profiling of mouse naive T cells from T-cell specific furin knockouts and wild type littermates

Project description:Purified naive (CD4+ CD62L+ CD44-) T cells from 10-11 weeks old T cell specific Furin knockout (CD4-cre fur flox/flox) and littermate wild type (fur flox/flox) control mice were profiled for gene expression using Affymetrix MOE 430 2.0 microarray platform.

2008-06-27 | E-MEXP-1682 | biostudies-arrayexpress

Furin deficiency efect on T cells

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2015-08-05 | E-GEOD-67884 | biostudies-arrayexpress

Effects of Lrf (encoded by Zbtb7a) deletion on gene expression in mouse embryonic fibroblast (MEF)

Project description:LRF is reported as a transcription repressor, but its transcription target genes are not completely known We compared the gene expression difference between control and Lrf deleted MEF by microarray Lrfflox/flox MEFs were transduced with MSCV-PIG-Cre or empty control vector retroviruses for 2 days at passage 2. After selection with puromycin for 2 days, total RNAs were purified using the RNAeasy Mini Kit (Qiagen) and treated with RNase-free DNase set (Qiagen). RNAs from two independent experiments were labelled and hybridized using Affymetrix GeneChip® HT Mouse Genome 430 arrays by the Beth Israel Deaconess Medical Center Genomics and Proteomics

2015-07-10 | E-GEOD-70680 | biostudies-arrayexpress

Minocycline is an inhibitor of the TNF-alpha induced fusion of human M13SV1-Cre breast epithelial cells and human MDA-MB-435-pFDR1 breast cancer cells

Project description:Using a Cre-LoxP-based cell fusion assay we able to demonstrate that the fusion of human M13SV1-Cre breast epithelial cells and human MDA-MB-435-pFDR1 breast cancer cells was induced by TNF-alpha both under normoxic and hypoxic conditions. To investigate the impact of TNF-alpha on the gene expression profile of the cells M13SV1 and MDA-MB-435-pFDR1 cells were cultured for three days in the presence of 100ng/ml TNF-alpha both under normoxic and hypoxic conditions. Untreated cells served as a control. Subsequently, total RNA was extracted from the cells. Total RNA of three independent experiments that matched RIN criteria of 8 to 10 was pooled. Synthesis and Cy3 labeling of cDNA and hybridization of microarrays and microarray analysis was performed by Source Biosciences (Nottingham, UK). Microarray gene expression data were analyzed using GeneSpring GX v14.8 software (Agilent Technologies).

2018-04-23 | E-MTAB-6084 | biostudies-arrayexpress

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