Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Expression data from peripheral blood mononuclear cells in multiple sclerosis patients and controls

ABSTRACT: Multiple sclerosis (MS) is a neurodegenerative disease with a presumed autoimmune component. Expression profiling in immune cells can therefore be used in order to identify genes and pathways involved in MS pathogenesis. We conducted a genome-wide expression study in peripheral blood mononuclear cells (PBMC) from 12 MS patients and 15 controls in order to identify differentially expressed genes and pathways in MS. PBMCs were isolated from whole blood and total RNA was extracted.

ORGANISM(S): Homo sapiens

SUBMITTER: Anu Kemppinen

PROVIDER: E-GEOD-21942 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:Rationale: Pulmonary arterial hypertension is a common and potentially fatal complication of scleroderma that may involve inflammatory and autoimmune mechanisms. Alterations in the gene expression of peripheral blood mononuclear cells have been previously described in patients with pulmonary arterial hypertension. The ability to identify patients at risk for developing pulmonary hypertension would be clinically beneficial. Objective: To identify genes that are differentially expressed in peripheral blood mononuclear cells in scleroderma patients with and without pulmonary hypertension which could be used as biomarkers of disease for early diagnosis and provide insight into pathogenesis of pulmonary hypertension in at-risk populations. Methods and Results: Gene expression analysis was performed on a carefully characterized Microarray Cohort of scleroderma patients with (n=10) and without (n=10) pulmonary hypertension. Differentially expressed genes were confirmed in the Microarray Cohort and validated in a separate Validation Cohort of scleroderma patients with (n=15) and without (n=19) pulmonary hypertension by RT-qPCR. We identified inflammatory and immune-related genes including interleukin-7 receptor (IL-7R) and chemokine receptor 7 (CCR7) as differentially expressed in patients with scleroderma-associated pulmonary hypertension. Flow cytometry confirmed decreased expression of IL-7R on circulating CD4+ T cells from scleroderma patients with pulmonary hypertension. Conclusions: Differences exist in the expression of inflammatory and immune-related genes in peripheral blood cells derived from patients with scleroderma-related pulmonary hypertension compared to those with normal pulmonary artery pressures. These findings may have implications as biomarkers to screen at-risk populations to facilitate early diagnosis and provide insight into inflammatory and autoimmune mechanisms of scleroderma-related pulmonary hypertension. Gene expression analysis was performed on a carefully characterized Microarray Cohort of scleroderma patients with (n=10) and without (n=10) pulmonary hypertension. Differentially expressed genes were confirmed in the Microarray Cohort by RT-qPCR.

Project description:White blood cells (WBCs) express tens of thousands of genes. Their expression levels are modified by genetic and external factors. In further study we found that gene expression profiles of these cellls can serve as surrogate markers for monitoring exercise and training load.The purpose of the present study was to investigate the effects of acute exercise on gene expression profiles (GEPs) of PBMCs and T-lymphocytes in order to re-detect the patterns in subpopulations. The use of WBC subpopulations is necessary because of the well known subpopulation shifts that occur during physical activities. Three male probands performed an exhaustive treadmill test (ET) at 80% of their VO2max. PBMCs were isolated using BD Vacutainer CPT tubes containig Ficoll. T-lymphocytes were isolated from the PBMCs via rosetting technology. Gene expression profiles were measured using the Affymetrix GeneChipÂ® technology. After scaling, normalisation, and filtering groupwise and pairwise comparisons of gene expression intensities were performed. We found that sorting increases the detection sensitivity and enables the researcher to observe regulation that is hidden in heterogenous populations. We therefore suggest not to work on mixed nbut instead on sorted cells when performing gene expression analyses. Experiment Overall Design: Three healthy male probands executed an exhaustive treadmill test (80% VO2max) until individual exhaustion. Blood samples (16ml) were drawn before and one hour past the tests. PBMCs were isolated using the Ficoll density centrifugation methode. T-lymphocytes were isolated by adding rosetting anibodies zo the cells before centrifugation. Cells were lysed using Trizol and worked up with Qiagen RNeasy Micro columns. RNA was processed and hybridised on U133A 2.0 Affymetrix GeneChips. Samples were grouped and gene expression changes were detected via multiple algorithms included in GeneSpring 7.2 (Agilent). Experiment Overall Design: The four groups contained three samples related to the cell type "PBMC" or "T-cell" and "before exercise" or "1hour past exercise". TTest, GOs and KEGG classification, principal component analysis and hierarchical clstering were used to scan for gene expression profiles induced through the different exercise conditions.

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Expression data from peripheral blood mononuclear cells in multiple sclerosis patients and controls

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