A meta-analysis of public microarray data identifies gene regulatory pathways deregulated in peripheral blood mononuclear cells from individuals with Systemic Lupus Erythematosus compared to those without
| dc.contributor.author | Kroger, Wendy | |
| dc.contributor.author | Mapiye, Darlington | |
| dc.contributor.author | Entfellner, Jean-Baka Domelevo | |
| dc.contributor.author | Tiffin, Nicki | |
| dc.date.accessioned | 2017-11-13T07:26:19Z | |
| dc.date.available | 2017-11-13T07:26:19Z | |
| dc.date.issued | 2017 | |
| dc.description.abstract | BACKGROUND: Systemic Lupus Erythematosus (SLE) is a complex, multi-systemic, autoimmune disease for which the underlying aetiological mechanisms are poorly understood. The genetic and molecular processes underlying lupus have been extensively investigated using a variety of -omics approaches, including genome-wide association studies, candidate gene studies and microarray experiments of differential gene expression in lupus samples compared to controls. METHODS: This study analyses a combination of existing microarray data sets to identify differentially regulated genetic pathways that are dysregulated in human peripheral blood mononuclear cells from SLE patients compared to unaffected controls. Two statistical approaches, quantile discretisation and scaling, are used to combine publicly available expression microarray datasets and perform a meta-analysis of differentially expressed genes. RESULTS: Differentially expressed genes implicated in interferon signaling were identified by the meta-analysis, in agreement with the findings of the individual studies that generated the datasets used. In contrast to the individual studies, however, the meta-analysis and subsequent pathway analysis additionally highlighted TLR signaling, oxidative phosphorylation and diapedesis and adhesion regulatory networks as being differentially regulated in peripheral blood mononuclear cells (PBMCs) from SLE patients compared to controls. CONCLUSION: Our analysis demonstrates that it is possible to derive additional information from publicly available expression data using meta-analysis techniques, which is particularly relevant to research into rare diseases where sample numbers can be limiting. | en_US |
| dc.description.accreditation | Scopus & ISI | |
| dc.identifier.citation | Kröger, W. et al. (2017). A meta-analysis of public microarray data identifies gene regulatory pathways deregulated in peripheral blood mononuclear cells from individuals with Systemic Lupus Erythematosus compared to those without. BMC Medical Genomics, 9: 66 | en_US |
| dc.identifier.issn | 1755-8794 | |
| dc.identifier.uri | htpp://dx.doi.org/10.1186/s12920-016-0227-0 | |
| dc.identifier.uri | http://hdl.handle.net/10566/3264 | |
| dc.language.iso | en | en_US |
| dc.privacy.showsubmitter | FALSE | |
| dc.publisher | BioMed Central | en_US |
| dc.rights | © The Author(s). 2016 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. | |
| dc.status.ispeerreviewed | TRUE | |
| dc.subject | Lupus | en_US |
| dc.subject | Systemic Lupus Erythematosus (SLE) | en_US |
| dc.subject | Microarray | en_US |
| dc.subject | Gene expression | en_US |
| dc.subject | Meta-analysis | en_US |
| dc.title | A meta-analysis of public microarray data identifies gene regulatory pathways deregulated in peripheral blood mononuclear cells from individuals with Systemic Lupus Erythematosus compared to those without | en_US |
| dc.type | Article | en_US |