Transcription profiling of peripheral blood mononuclear cells (PBMCs) from controls and age matched ,utiple myeloma patients treated with pamindronate or zoeldronate to investigate Allylamine dose response
ABSTRACT: Response to Oxidative Stress via administration of Allylamine
Project description:By performing a comprehensive exploration of peripheral blood by microarray analysis from a subset of the Genetics osteoARthritis and Progression (GARP) study in comparison with sex and age-matched healthy controls we have identified disease specific gene expression networks. Our data hint at the relevance of apoptosis as an etiological factor in osteoarthritis onset, thereby qualifying expression profiling of blood as a useful tool to understand the underlying molecular mechanisms of osteoarthritis. Overall design: Case-control study comparing gene expression profiles generated with total messenger RNA obtained from peripheral blood mononuclear cells of controls with that of osteoarthritis (OA) patients from the GARP study. The GARP study consists in Dutch Caucasian sib pairs with symptomatic OA at multiple joint locations and has been described previously by Riyazi et al (Ann Rheum Dis 2005;64:438-43).
Project description:The effect of cafeteria (CAF) diet in PBMC gene expression was analyzed in two inbred rat strains the Wistar Kyoto(WKY) and Lewis (LEW) rat PBMCs were isolated following a CAF or standard diet and subjected to whole genome expression analysis Overall design: Rats from each strain were either fed with standard chow diet (n=5) or CAF (n=5). After 7 weeks of the indicated diet, rats were fasted for 9 hours, culled and PBMCs isolated from whole blood collected from the abdominal aorta
Project description:The effect of cafeteria (CAF) diet in PBMC gene expression was analyzed in two inbred rat strains the Wistar Kyoto(WKY) and Lewis (LEW) rat PBMCs were isolated following a CAF or standard diet and subjected to whole genome expression analysis Rats from each strain were either fed with standard chow diet (n=5) or CAF (n=5). After 7 weeks of the indicated diet, rats were fasted for 9 hours, culled and PBMCs isolated from whole blood collected from the abdominal aorta
Project description:To search for new markers of active lesions that might help better understand the molecular basis of MN and IgAN and aid in their diagnosis, DNA microarray analysis was performed with peripheral blood mononuclear cells (PBMCs) Overall design: 1-color microarray experiments were performed on peripheral blood mononuclear cells (PBMCs) from 15 IgAN patients, 8 membranous nephropathy patients and pooled healthy subjects.
Project description:Objective:To identify an accurate blood-based gene signature for early detection of Kashin-Beck disease (KBD). Methods: Gene expression analysis was conducted of peripheral blood samples from 100 patients with KBD and 100 controls randomly chosen from two KBD-endemic areas Two-condition experiment, Control vs. KBD PBM cells. Biological replicates: 100 control replicates, 100 KBD replicates.
Project description:Interferon alfa (IFN-alpha) is an approved therapeutic agent for chronic hepatitis C. To directly characterize the effects of IFN-alpha in humans, we used microarrays to profile gene expression in peripheral blood mononuclear cells (PBMCs) from hepatitis C patients treated with IFN-alpha. Seven patients were studied using two strategies: (1) in vivo: PBMCs were collected immediately before the first dose of IFN-alpha, and 3 and 6 hours after the dose; (2) ex vivo: PBMCs that were collected before the first IFN-alpha dose were incubated with IFN-alpha for 3 and 6 hours. The microarray datasets were analyzed with significance analysis of microarrays (SAM) to identify genes regulated by IFN-alpha. We identified 516 named genes up-regulated at least 2-fold, at a false discovery rate (FDR) of less than 1%. In vivo and ex vivo studies generated similar results. No genes were identified as regulated differently between these 2 experimental conditions. The up-regulated genes belonged to a broad range of functional pathways and included multiple genes thought to be involved in the direct antiviral effect of IFN-alpha. Of particular interest, 88 genes directly relating to functions of immune cells were up-regulated, including genes involved in antigen processing and presentation, T-cell activation, lymphocyte trafficking, and effector functions, suggesting that IFN-alpha up-regulates multiple genes involving different aspects of immune responses to enhance immunity against hepatitis C virus. In conclusion, IFN-alpha-inducible genes can be identified in human PBMCs in vivo as well as ex vivo. Signature changes associated with different treatment outcomes may be found among these genes.
Project description:Exercise leads to a rapid change in the profile of gene expression in circulating PBMCs. We hypothesized that miRNA expression in circulating PBMCs would also be affected by brief exercise. 12 healthy men (19-30 yr old) performed 10 2-min bouts of cycle ergometer exercise interspersed with 1-min rest at a constant work equivalent to about 76% of VO2max. A baseline blood sample was taken before and immediately after the exercise. Neutrophils were isolated using OptiPrep Density Gradient Medium (SIGMA). Total RNA was extracted using TRIzol®. For this study we used Agilent Human miRNA microarrays V2 (total of 24 chips).
Project description:Inflammatory cytokine responses to activation of innate immunity differ between individuals, yet the genomic and transcriptomic determinants of inflammatory responsiveness are not well understood. We hypothesized that mRNA and lincRNA expression is modulated in disease-relevant tissues in humans in vivo during inflammation, and differs between individuals with divergent evoked inflammatory responses. In the Genetics of Evoked Response to Niacin and Endotoxemia (GENE) Study, we performed an inpatient endotoxin challenge (1ng/kg LPS) in healthy humans. We selected individuals in the top (high-responders) and bottom (low-responders) extremes for inflammatory responses, and applied RNASeq to peripheral blood mononuclear cells (PBMC, n=15) before and after LPS administration. At baseline, there were limited differences in gene expression by sex or race. Further, only a small number of genes differed between high and low responders at baseline. Post-LPS, there were clear differences in the magnitude of the transcriptional response between high and low responders, with a far greater number of genes differentially expressed post-LPS in high responders, consistent with the clinical response. We also found a number of differentially expressed long intergenic non-coding RNAs (lincRNAs) post-LPS. We show that differences in gene expression may drive differences in clinical inflammatory response, and that differentially expressed genes and lincRNAs represent novel candidates for modulation of immune and metabolic responses in acute and chronic diseases. Overall design: Peripheral blood mononuclear cells (PBMCs) from 15 healthy subjects were sequenced by Illumina HiSeq 2000 with poly-A selection
Project description:Using PAXgene tubes, peripheral blood samples were collected from seven patients >18 years with documented pdm(H1N1) influenza, bilateral chest infiltrates, and in need of ventilation support. Significant co-morbidity was exclusion criterion. Expression profiles were compared with 7 age matched controls. Using a false discovery rate < 5% and an absolute fold change > 2, 370 genes were differentially expressed in case and controls. A second sample was collected after ca 6 days in the 7 patients and temporal changes in expression profiles investigated. Over expressed putative mediators of inflammatory lung dammage were measured on the protein level. Overall design: 14 patient samples (7 paired samples) and 7 control samples were performed.
Project description:Mononuclear phagocytes (MPs), including monocytes and macrophages, play complex roles in the pathogenesis of age-related macular degeneration (AMD). We aimed to perform global transcriptome analysis on monocytes from AMD patients to obtain additional insight to the role of MPs in AMD. Peripheral blood was taken from treatment-naïve neovascular AMD (nvAMD) patients (n=14), and age-matched controls (n=15). Peripheral blood mononuclear cells (PBMCs) were separated and monocytes were isolated via negative selection. Gene expression was evaluated with Affymetrix Gene1.0 ST microarrays. Statistical/bioinformatics analysis was performed using open sourceware programs. Overall design: 14 neovascular age-related macular degeneration patients, 15 age-matched controls, peripheral blood monocytes were extracted via histopaque separation and negative selection using magnetic beads. Total monocyte RNA was extracted using tri-reagent, and cleaned using columns. RIN was evaluated using Agilent Bioanalyzer