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Variability in synovial inflammation in rheumatoid arthritis investigated by microarray technology
In recent years microarray technology has been used increasingly to acquire knowledge about the pathogenic processes involved in rheumatoid arthritis. The present study investigated variations in gene expression in synovial tissues within and between patients with rheumatoid arthritis. This was done...
Autores principales: | , , , , , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2006
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1526587/ https://www.ncbi.nlm.nih.gov/pubmed/16507157 http://dx.doi.org/10.1186/ar1903 |
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author | Lindberg, Johan af Klint, Erik Ulfgren, Ann-Kristin Stark, André Andersson, Tove Nilsson, Peter Klareskog, Lars Lundeberg, Joakim |
author_facet | Lindberg, Johan af Klint, Erik Ulfgren, Ann-Kristin Stark, André Andersson, Tove Nilsson, Peter Klareskog, Lars Lundeberg, Joakim |
author_sort | Lindberg, Johan |
collection | PubMed |
description | In recent years microarray technology has been used increasingly to acquire knowledge about the pathogenic processes involved in rheumatoid arthritis. The present study investigated variations in gene expression in synovial tissues within and between patients with rheumatoid arthritis. This was done by applying microarray technology on multiple synovial biopsies obtained from the same knee joints. In this way the relative levels of intra-patient and inter-patient variation could be assessed. The biopsies were obtained from 13 different patients: 7 by orthopedic surgery and 6 by rheumatic arthroscopy. The data show that levels of heterogeneity varied substantially between the biopsies, because the number of genes found to be differentially expressed between pairs of biopsies from the same knee ranged from 6 to 2,133. Both arthroscopic and orthopedic biopsies were examined, allowing us to compare the two sampling methods. We found that the average number of differentially expressed genes between biopsies from the same patient was about three times larger in orthopedic than in arthroscopic biopsies. Using a parallel analysis of the tissues by immunohistochemistry, we also identified orthopedic biopsies that were unsuitable for gene expression analysis of synovial inflammation due to sampling of non-inflamed parts of the tissue. Removing these biopsies reduced the average number of differentially expressed genes between the orthopedic biopsies from 455 to 171, in comparison with 143 for the arthroscopic biopsies. Hierarchical clustering analysis showed that the remaining orthopedic and arthroscopic biopsies had gene expression signatures that were unique for each patient, apparently reflecting patient variation rather than tissue heterogeneity. Subsets of genes found to vary between biopsies were investigated for overrepresentation of biological processes by using gene ontology. This revealed representative 'themes' likely to vary between synovial biopsies affected by inflammatory disease. |
format | Text |
id | pubmed-1526587 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2006 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-15265872006-08-04 Variability in synovial inflammation in rheumatoid arthritis investigated by microarray technology Lindberg, Johan af Klint, Erik Ulfgren, Ann-Kristin Stark, André Andersson, Tove Nilsson, Peter Klareskog, Lars Lundeberg, Joakim Arthritis Res Ther Research Article In recent years microarray technology has been used increasingly to acquire knowledge about the pathogenic processes involved in rheumatoid arthritis. The present study investigated variations in gene expression in synovial tissues within and between patients with rheumatoid arthritis. This was done by applying microarray technology on multiple synovial biopsies obtained from the same knee joints. In this way the relative levels of intra-patient and inter-patient variation could be assessed. The biopsies were obtained from 13 different patients: 7 by orthopedic surgery and 6 by rheumatic arthroscopy. The data show that levels of heterogeneity varied substantially between the biopsies, because the number of genes found to be differentially expressed between pairs of biopsies from the same knee ranged from 6 to 2,133. Both arthroscopic and orthopedic biopsies were examined, allowing us to compare the two sampling methods. We found that the average number of differentially expressed genes between biopsies from the same patient was about three times larger in orthopedic than in arthroscopic biopsies. Using a parallel analysis of the tissues by immunohistochemistry, we also identified orthopedic biopsies that were unsuitable for gene expression analysis of synovial inflammation due to sampling of non-inflamed parts of the tissue. Removing these biopsies reduced the average number of differentially expressed genes between the orthopedic biopsies from 455 to 171, in comparison with 143 for the arthroscopic biopsies. Hierarchical clustering analysis showed that the remaining orthopedic and arthroscopic biopsies had gene expression signatures that were unique for each patient, apparently reflecting patient variation rather than tissue heterogeneity. Subsets of genes found to vary between biopsies were investigated for overrepresentation of biological processes by using gene ontology. This revealed representative 'themes' likely to vary between synovial biopsies affected by inflammatory disease. BioMed Central 2006 2006-02-16 /pmc/articles/PMC1526587/ /pubmed/16507157 http://dx.doi.org/10.1186/ar1903 Text en Copyright © 2006 Lindberg et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Lindberg, Johan af Klint, Erik Ulfgren, Ann-Kristin Stark, André Andersson, Tove Nilsson, Peter Klareskog, Lars Lundeberg, Joakim Variability in synovial inflammation in rheumatoid arthritis investigated by microarray technology |
title | Variability in synovial inflammation in rheumatoid arthritis investigated by microarray technology |
title_full | Variability in synovial inflammation in rheumatoid arthritis investigated by microarray technology |
title_fullStr | Variability in synovial inflammation in rheumatoid arthritis investigated by microarray technology |
title_full_unstemmed | Variability in synovial inflammation in rheumatoid arthritis investigated by microarray technology |
title_short | Variability in synovial inflammation in rheumatoid arthritis investigated by microarray technology |
title_sort | variability in synovial inflammation in rheumatoid arthritis investigated by microarray technology |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1526587/ https://www.ncbi.nlm.nih.gov/pubmed/16507157 http://dx.doi.org/10.1186/ar1903 |
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