Gene expression in wild type and mENT1 knock out mice
ABSTRACT: To investigate the functional importance of a nucleoside transporter, the mENT1 (Slc29a1) was knocked out in mice. The gene expression profile was compared between wildtype and mENT1 knock out mice in two tissues. RNA was isolated from heart and kidney from 3 mENT1 knockout and 3 wildtype (FVB/N) mice.Gene expression profiles were compared between the knockout and wild type tissues.
Biochemistry and cell biology = Biochimie et biologie cellulaire 20110401 2
Owing to the overlapping and redundant roles of the seven mammalian nucleoside transporters (NTs), which belong to two protein families (ENTs and CNTs), the physiological importance of individual NTs has been difficult to assess. Mice that have NT genes knocked out can be a valuable tool in gaining an understanding of the NT proteins. We have generated a strain of mice that is homozygous for a disruption mutation between exons 2 and 3 of the mouse equilibrative nucleoside transporter, mENT1. We ...[more]
Project description:Gene expression profiles were generated from 199 primary breast cancer patients. Samples 1-176 were used in another study, GEO Series GSE22820, and form the training data set in this study. Sample numbers 200-222 form a validation set. This data is used to model a machine learning classifier for Estrogen Receptor Status. RNA was isolated from 199 primary breast cancer patients. A machine learning classifier was built to predict ER status using only three gene features.
Project description:To determine potential roles of three transcript factors (Rbf1p, Hfl1p and Dpb4p) in cell metabolic activities and other cellular bioprocesses, we have performed genomic microarray in each gene knockout strain and transcription profiles were compared to its parental strain SN250 The total RNAs were extracted from exponential growth of null mutants and SN250, then used to synthesize cDNA for microarray assays in Aglient array that contains 6101 genes in duplicate
Project description:MEKK1 wildtype and knockout keratinocytes were compared both with and without activin (10 ng/ml) treatment for 12 hours, and control vs activin treated cells were compared both for wildtype and knockout. This was performed in a square design.
Project description:Recent reports have been suggested involvement of ABC transporters in various physiological roles.To get better insight about possible involvement of vacuolar ABC transporter MLT1/orf19.5100 in different physiological roles transcriptional profiling have been peformed and compared between WT(SC5314) Candida albicans cells vs putative orf19.5100 knockout cells after 6hrs growth of culture.The assay as peformed in biological duplicate sample. Agilent one-color experiment,Organism: Candida albicans ,Custom Agilent Candida albicans 8x15k Microarray Gene expression (AMADID: 026377) designed by Genotypic Technology Private Limited , Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)
Project description:Drugs used to treat obesity and type 2 diabetes have limited efficacy in directly normalising muscle metabolism. The discovery of molecules mediating exercise adaptations, and drugs that modulate their activity, is a potential strategy to address this therapeutic gap. Here we show that genetic impairment of HDAC4 and 5 in mice regulated a subset of exercise responsive genes involved in metabolism and increased cell autonomous energy expenditure. Screening of HDAC inhibitors identified Scriptaid as a compound that also replicated aspects of the exercise adaptive response in vitro and in vivo. Treatment of obese mice with Scriptaid increased exercise performance, restored muscle insulin sensitivity and reduced muscle lipids. Scriptaid also increased oxygen consumption and normalised cardiac structure and function in obese mice. These data show that HDAC inhibition replicates aspects of the exercise adaptive response and that pharmacological HDAC inhibition could deliver more efficacious treatment to combat the metabolic diseases. Four-condition experiment, Empty, HDACs, Vehicle and Script-HDACs with five biological replicates for each condition. One replicate per array.
Project description:We analysed genes upregulated or down regulated by double deletion of Rac1 and Rac3 (Rac1/Rac3-DKO) in cerebellar granule neurons compared with control, using the external granule layer (EGL) dissected from Rac1/Rac3-DKO cerebellum at P6. Rac1-KO mouse is an inducible knockout, in which Rac1 is specifically deleted in cerebellar granule neurons under control of Atoh1 (also called Math1) promoter. In contrast, Rac3-KO mouse is a conventional/simple KO, in which Rac3 is deleted in all cells in the body. Total RNA from the medial portion of the EGL of Rac1/Rac3-DKO and control cerebella at P6 was extracted using TRIzol (Invitrogen). The quality and quantity of RNA were determined using the Agilent 2100 BioAnalyzer.
Project description:Type I interferons (IFNs) are a family of cytokines that play an important role in regulating immune responses to pathogens and tumors and are used therapeutically. All IFNs are considered to signal via the heterodimeric IFNAR1-IFNAR2 complex, yet some subtypes such as IFN? can exhibit distinct functional properties, although the molecular basis of this is unclear. Here we demonstrate IFN uniquely and specifically ligates to IFNAR1 in an IFNAR2-independent manner and provide the structural basis of the IFNAR1-IFN interaction. We show that the IFNAR1-IFN complex transduces signals to modulate the expression of a set of genes independently of IFNAR2. Moreover, we show the in vivo importance of the IFNAR1-IFN signaling axis in a murine model of LPS-induced septic shock. Thus, we provide a molecular basis for understanding specific functions of IFN?. Interferon b induced gene expression in peritoneal exudate cells was measured 3hr post intra-peritoneal injection of 10,000IU/ml of interferon beta or saline into wildtype and Ifnar2-/- mice. Three independant experiments were performed for each treatment in both genotypes using different mice for each sample.
Project description:The experiment was carried out to study the effect of loss of (p)ppGpp or cyclic di-GMP on the gene expression pattern of Mycobacterium smegmatis MC2 155 strains. The cells were cultured in MB7H9 broth containing 0.2% glycerol and 0.05% Tween 80. The transcriptome analysis was performed using GeneSpring GX12 software. Fold changes were calculated with respect to the median expression of wild type replicates. The number of differentially expressed genes (p <0.1) in rel knockout were 417 whereas those in dcpA knockout were 149. Earlier studies had shown that rel knockout and dcpA knockout had shown lower levels of glycopeptidolipids and polar lipids in the cell wall. The microarray data also corraborates our current findings. Organism : Mycobacterium smegmatis, Agilent Custom Mycobacterium smegmatis Gene Expression M.smegmatis_gxp_8X15K (AMADID: 029929) designed by Genotypic Technology Private Limited.
Project description:Gene expression profiles were generated from 176 primary breast cancer patients and 12 normal breast samples. This data is used to investigate the clinical relevance of genes of interest from in vitro studies, including FABP5 and DDX1. This Series represents RNA isolated from 176 primary breast cancer patients and 10 normal breast samples. Gene expression is compared between various subgroups depending on their clinical parameters.