GEO DataSets

(Submitter supplied) To identify gene expression changes and pathways induced by interferon-β (IFN-β) in B cells, we studied the in vitro response of EBV-transformed B cells (lymphoblast cell lines-LCLs). LCLs were derived from an MS patient repository. Whole genome expression analysis identified 115 genes that were more than two-fold differentially up-regulated following IFN-β exposure, with over 50 novel IFN-β response genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

32 Samples

Download data: TXT

(Submitter supplied) The purpose of this study was to characterize the transcriptional effects induced by subcutaneous IFN-beta-1a treatment (Rebif, 22 µg or 44 µg three times a week) in patients with relapsing-remitting form of multiple sclerosis (MS). By using Affymetrix DNA microarrays, we obtained genome-wide expression profiles of peripheral blood mononuclear cells from 12 MS patients within the first two years of IFN-beta administration.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL14837

60 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array; Methylation profiling by array

Platforms:

GPL8490 GPL6947

192 Samples

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(Submitter supplied) Epstein-Barr virus (EBV)-transformed lymphoblastoid cell lines (LCLs) provide a conveniently accessible and renewable resource for functional studies in humans. The ability to accumulate multidimensional data pertaining to the same individual cell lines, from complete genomic sequences to detailed gene regulatory profiles, further enhances the utility of LCLs as a model system. A lingering concern, however, is that the changes associated with EBV transformation of LCLs reduce the usefulness of LCLs as a surrogate model for primary tissues. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL8490

96 Samples

Download data: TXT

(Submitter supplied) Epstein-Barr virus (EBV)-transformed lymphoblastoid cell lines (LCLs) provide a conveniently accessible and renewable resource for functional studies in humans. The ability to accumulate multidimensional data pertaining to the same individual cell lines, from complete genomic sequences to detailed gene regulatory profiles, further enhances the utility of LCLs as a model system. A lingering concern, however, is that the changes associated with EBV transformation of LCLs reduce the usefulness of LCLs as a surrogate model for primary tissues. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6947

96 Samples

Download data: TXT

(Submitter supplied) Genome wide association studies have identified >200 susceptibility loci accounting for much of the heritability of Multiple Sclerosis (MS). Epstein-Barr virus (EBV), a memory B cell tropic virus, has been identified as necessary but not sufficient for development of MS. The molecular and immunological basis for this has not been established. Infected B cell proliferation is driven by signalling through the EBV produced cell surface protein LMP1, a homologue of the MS risk gene CD40. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

10 Samples

Download data: TXT

(Submitter supplied) The purpose of this study was to characterize the transcriptional effects induced by subcutaneous IFN-beta-1b treatment (Betaferon, 250 µg every other day) in patients with relapsing-remitting form of multiple sclerosis (MS). By using Affymetrix DNA microarrays, we obtained genome-wide expression profiles of peripheral blood mononuclear cells from 25 MS patients within the first two years of IFN-beta administration.

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS4145 GDS4146

Platforms:

GPL96 GPL97

250 Samples

Download data: CEL

(Submitter supplied) The purpose of this study was to characterize the transcriptional effects induced by intramuscular IFN-beta-1a treatment (Avonex, 30 µg once weekly) in patients with relapsing-remitting form of multiple sclerosis (MS). By using Affymetrix DNA microarrays, we obtained genome-wide expression profiles of peripheral blood mononuclear cells from 24 MS patients within the first four weeks of IFN-beta administration. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL9741 GPL9742

144 Samples

Download data: CEL

Temporal analysis of PBMCs collected from 25 German relapsing-remitting multiple sclerosis patients treated with recombinant interferon-beta-1b (rIFN-β-1b, 250 µg every other day) for 2 years. Results provide insight into molecular mechanisms of IFN-b action.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 gender, 5 time sets

Platform:

GPL97

Series:

GSE24427

125 Samples

Download data: CEL

Temporal analysis of PBMCs collected from 25 German relapsing-remitting multiple sclerosis patients treated with recombinant interferon-beta-1b (rIFN-β-1b, 250 µg every other day) for 2 years. Results provide insight into molecular mechanisms of IFN-b action.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 gender, 5 time sets

Platform:

GPL96

Series:

GSE24427

125 Samples

Download data: CEL

(Submitter supplied) Statin-induced gene expression differences observed in LCLs may be influenced by their transformation, and thus differ from those observed in native B-cells. To assess this possibility, we prepared LCLs and purified B-cells from the same donors, and compared mRNA profiles after 24hr incubation with simvastatin (2µM) or sham buffer.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

48 Samples

Download data: TXT

(Submitter supplied) Monocytes/macrophages are activated in several autoimmune diseases, including systemic sclerosis (scleroderma, SSc), with increased expression of IFN-regulatory genes and inflammatory cytokines, suggesting dysregulation of the innate immune response in autoimmunity. Recently, we found that EBV is deregulated in SSc with abnormal expression of viral lytic-genes in PBMCs and skin. Since monocytes/macrophages are involved in innate immune recognition of EBV/lytic infection, we sought to determine whether EBV might contribute to their activation in SSc. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17930

8 Samples

Download data: CEL

(Submitter supplied) The research hypothesis was that the unique expression profile of monocytes in response to Interferon-beta (IFN-β) might be masked by the response profile of the more abundant T cells. The analysis of monocytes response may highlight novel IFN-β functions and pathways that have not been recognized previously. The aim of this study was to characterized the IFN-β transcriptional response in monocytes, a small but influential cell-subset, using gene expression profile and pathway analysis. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6884

12 Samples

Download data: TXT

(Submitter supplied) Epstein-Barr virus (EBV) transformed lymphoblastoid cell lines (LCLs) are a widely used renewable resource for functional genomic studies in humans. The ability to accumulate multidimensional data pertaining to the same individual cell lines, from complete genomic sequences to detailed gene regulatory profiles, further enhances the utility of LCLs as a model system. However, the extent to which LCLs are a faithful model system is relatively unknown. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL10558 GPL6947

187 Samples

Download data: TXT

(Submitter supplied) Compared to primary human monocytes in whole blood cultures, few B cells activated STAT1 in response to stimulation of 2000 IU/ml IFN-beta for 45 minutes. Because activation of STAT1 leads to apoptosis induction, we tested the hypothesis that less pro-apoptotic genes are induced in B cells as compared to monocytes. Manuscript titled: Major differences in the responses of primary human leukocyte subsets to IFN-beta. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6104

6 Samples

Download data: TXT

(Submitter supplied) Background: In multiple sclerosis (MS), immune up-regulation is coupled to subnormal immune response to interferon-β (IFN-β) and low serum IFN-β levels. The relationship between the defect in IFN signalling and acute and long-term effects of IFN-β on gene expression in MS is inadequately understood. Methods: We profiled IFN-β-induced transcriptome shifts, using high-resolution microarrays on 227 mononuclear cell samples from IFN-β-treated MS Complete Responders (CR) stable for five years, and stable and active Partial Responders (PR), stable and active untreated MS, and healthy controls. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17586

227 Samples

Download data: CEL

(Submitter supplied) One of our new major finding among the genes that contributes to MS susceptibility is ICSBP1. The so called disease modifying therapies like interferon-beta (IFN-β), possibly acting on the peripheral T-cells, reduce the disease activity and the clinical progression, with a MRI-detectable effect in preventing lesion burden and cerebral atrophy development in RR-MS. It suggests a critical role of peripheral blood mononuclear cells (PBMCs) immune response and modulation in developing inflammation in the brain. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

240 Samples

Download data: CEL

(Submitter supplied) We studied the gene expression patterns in PBMC from relapsing remitting MS patients undergoing weekly IFN-ß-1a therapy. On the basis of two fold changes in expression levels and statistical analyses we selected a diagnostic set of 137 genes that were differentially expressed between pretreatment and IFN-ß-1a-treated MS patients. Some these 137 genes may provide the basis for lack of IFN-ß-1a response. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS2419

Platform:

GPL4191

36 Samples

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Analysis of peripheral blood mononuclear cells from relapsing-remitting multiple sclerosis (MS) patients 1 day before, 1 day after, and up to 12 months after the initiation of interferon beta-1a (IFN-beta-1a) therapy. Results identify biomarkers for beta-IFN responsiveness.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 agent, 2 disease state, 6 individual, 4 time sets

Platform:

GPL4191

Series:

GSE5574

36 Samples

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(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

Platforms:

GPL20795 GPL24676

170 Samples

Download data: TXT