Project description:Expression analysis of CEBPa knockout effects on gene expression in adult mouse liver. We used a conditional knock out strategy to delete CEBPa specifically in adult mouse hepatocytes and analysed the resulting changes in gene expression by means of microarrays.
Project description:Total RNA from seven breast cell lines and one normal RNA samples was labelled using the Illumina TotalPrep RNA Amplification kit (Ambion) following manufacturer's instructions. 1.5 ug of biotin-labelled cRNA were used for each hybridisation on Sentrix Human-6 BeadChips (Illumina, San Diego, CA) following manufacturer's protocol.
Project description:Total RNA from 46 breast cell lines was labelled using the Illumina TotalPrep RNA Amplification kit (Ambion) following manufacturer�s instructions. 1.5 �g of biotin-labelled cRNA were used for each hybridisation on Sentrix Human-6 v1 BeadChips (Illumina, San Diego, CA) following manufacturer�s protocol.
Project description:Total RNA from 128 primary breast tumors was labelled using the Illumina TotalPrep RNA Amplification kit (Ambion) following manufacturers instructions. 1.5 ug of biotin-labelled cRNA were used for each hybridisation on Sentrix Human-6 BeadChips v1.0 (Illumina, San Diego, CA) following manufacturers protocol.
Project description:Expression analysis of K14Sin3afl/flCreER,K14Mycfl/flCreER and K14Sin3aMycfl/flCreER effects on gene expression in adult mouse skin. We used a conditional knock out strategy to delete Sin3a and/or c-Myc specifically in adult mouse K14 positive keratinocytes and analysed the resulting changes in gene expression by means of microarrays.
Project description:Homologous sets of transcription factors direct conserved tissue-specific transcription, yet transcription factor binding events diverge rapidly between closely related species. We used hepatocytes from a Down syndrome mouse model containing human chromosome 21 (TC1) to determine whether human genetic sequence or mouse nuclear environment primarily determines tissue-specific transcriptional regulation. Virtually all transcription factor binding locations, transcription initiation events and the resulting gene expression observed in human hepatocytes are recapitulated across the entire human chromosome 21 in the mouse nucleus. Thus, in homologous tissues, genetic sequence is largely responsible for directing transcriptional programs, and interspecies differences in epigenetics, cellular environment, and transcription factors themselves play secondary roles.
Project description:Analysis of synoviocytes cell form patients suffering of Rheumatoid arthritis and depleted for clusterin by siRNA knockdown. Note: this experiment was reloaded into ArrayExpress on 2nd December 2009 because the incorrect array design had originally been selected. The identifiers in the datafile were also fixed to match the array design.
Project description:We demonstrate that Prnp dosage is critical for the maintenance of neuronal homeostasis since both its absence and, more relevantly, its overexpression induce higher sensitivity to kainate (KA) damage. These data correlate with electrophysiological results in freely behaving mutant mice showing an imbalance in activity-dependent synaptic processes, as determined from input/output curves, paired-pulse facilitation, and LTP studies. Gene expression profiling showed that 129 genes involved in canonical pathways such as Ubiquitination or Neurotransmission among others were co-regulated in knockout and PrPc overexpressing mice. RT-qPCR analysis of neurotransmission-related genes confirmed GABA-A and AMPA-Kainate receptor subunit transcriptional co-regulation in both Prnp -/- and Tg20 mice. Our results demonstrate that PrPc is necessary for the proper homeostatic functioning of hippocampal circuits, because of its interactions with GABAA and AMPA-Kainate receptors. Keywords: steady state expression; adult brain tissue; hippocampus; genetic modification; transgenic gain of function mutation; targetted deletion loss of function mutation We performed a global transcriptome analysis of three strains that differ in their Prnp gene dose using Illumina Sentrix 6 mouse v1.1 beadarrays. We analyzed mRNA expression in the hippocampi of four individual male mice from each of three strains: 1) Tg20, with a 30 exogenous copies of the Prnp gene within a Prnp -/- background that overexpresses PrPc about 6-7 times the normal wild type levels; 2) littermates lacking the transgene and therefore carrying only the homozygous knock out Prnp -/- strain which lacks expression of PrPc; and 3) their wild type counterparts carrying two copies of the intact Prnp gene and expressing normal levels of PrPc
Project description:In this work we present the PrPC-dependent gene expression signature in N2A cells and its implication on the most overrepresented functions; cell cycle, cell growth and proliferation and cell morphology. To evaluate the genes whose transcription was regulated after Prnp modulation, RNA samples were analyzed with Illumina mouse whole genome beadarrays. cell type comparison; genetic modification; RNA interference
Project description:Using oligonucleotide microarray analysis, we identified 56 genes that were transcriptionally up-regulated and 69 that were suppressed upon exposure of endothelial cells to C. albicans. Among the regulated genes those attributed to the categories âchemotaxisâ, âsignalingâ, and âtranscription and translationâ were remarkably overrepresented. Experiment Overall Design: We performed 4 independent experiments comparing the expression profiles of untreated HUVEC monolayer with those of candida-infected HUVEC monolayer.