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A blood-based gene expression and signaling pathway analysis to differentiate between high and low grade gliomas
The aims of the present study were to undertake gene expression profiling of the blood of glioma patients to determine key genetic components of signaling pathways and to develop a panel of genes that could be used as a potential blood-based biomarker to differentiate between high and low grade glio...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
D.A. Spandidos
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5355666/ https://www.ncbi.nlm.nih.gov/pubmed/28004117 http://dx.doi.org/10.3892/or.2016.5285 |
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author | Ponnampalam, Stephen N. Kamaluddin, Nor Rizan Zakaria, Zubaidah Matheneswaran, Vickneswaran Ganesan, Dharmendra Haspani, Mohammed Saffari Ryten, Mina Hardy, John A. |
author_facet | Ponnampalam, Stephen N. Kamaluddin, Nor Rizan Zakaria, Zubaidah Matheneswaran, Vickneswaran Ganesan, Dharmendra Haspani, Mohammed Saffari Ryten, Mina Hardy, John A. |
author_sort | Ponnampalam, Stephen N. |
collection | PubMed |
description | The aims of the present study were to undertake gene expression profiling of the blood of glioma patients to determine key genetic components of signaling pathways and to develop a panel of genes that could be used as a potential blood-based biomarker to differentiate between high and low grade gliomas, non-gliomas and control samples. In this study, blood samples were obtained from glioma patients, non-glioma and control subjects. Ten samples each were obtained from patients with high and low grade tumours, respectively, ten samples from non-glioma patients and twenty samples from control subjects. Total RNA was isolated from each sample after which first and second strand synthesis was performed. The resulting cRNA was then hybridized with the Agilent Whole Human Genome (4×44K) microarray chip according to the manufacturer's instructions. Universal Human Reference RNA and samples were labeled with Cy3 CTP and Cy5 CTP, respectively. Microarray data were analyzed by the Agilent Gene Spring 12.1V software using stringent criteria which included at least a 2-fold difference in gene expression between samples. Statistical analysis was performed using the unpaired Student's t-test with a P<0.01. Pathway enrichment was also performed, with key genes selected for validation using droplet digital polymerase chain reaction (ddPCR). The gene expression profiling indicated that were a substantial number of genes that were differentially expressed with more than a 2-fold change (P<0.01) between each of the four different conditions. We selected key genes within significant pathways that were analyzed through pathway enrichment. These key genes included regulators of cell proliferation, transcription factors, cytokines and tumour suppressor genes. In the present study, we showed that key genes involved in significant and well established pathways, could possibly be used as a potential blood-based biomarker to differentiate between high and low grade gliomas, non-gliomas and control samples. |
format | Online Article Text |
id | pubmed-5355666 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | D.A. Spandidos |
record_format | MEDLINE/PubMed |
spelling | pubmed-53556662017-03-31 A blood-based gene expression and signaling pathway analysis to differentiate between high and low grade gliomas Ponnampalam, Stephen N. Kamaluddin, Nor Rizan Zakaria, Zubaidah Matheneswaran, Vickneswaran Ganesan, Dharmendra Haspani, Mohammed Saffari Ryten, Mina Hardy, John A. Oncol Rep Articles The aims of the present study were to undertake gene expression profiling of the blood of glioma patients to determine key genetic components of signaling pathways and to develop a panel of genes that could be used as a potential blood-based biomarker to differentiate between high and low grade gliomas, non-gliomas and control samples. In this study, blood samples were obtained from glioma patients, non-glioma and control subjects. Ten samples each were obtained from patients with high and low grade tumours, respectively, ten samples from non-glioma patients and twenty samples from control subjects. Total RNA was isolated from each sample after which first and second strand synthesis was performed. The resulting cRNA was then hybridized with the Agilent Whole Human Genome (4×44K) microarray chip according to the manufacturer's instructions. Universal Human Reference RNA and samples were labeled with Cy3 CTP and Cy5 CTP, respectively. Microarray data were analyzed by the Agilent Gene Spring 12.1V software using stringent criteria which included at least a 2-fold difference in gene expression between samples. Statistical analysis was performed using the unpaired Student's t-test with a P<0.01. Pathway enrichment was also performed, with key genes selected for validation using droplet digital polymerase chain reaction (ddPCR). The gene expression profiling indicated that were a substantial number of genes that were differentially expressed with more than a 2-fold change (P<0.01) between each of the four different conditions. We selected key genes within significant pathways that were analyzed through pathway enrichment. These key genes included regulators of cell proliferation, transcription factors, cytokines and tumour suppressor genes. In the present study, we showed that key genes involved in significant and well established pathways, could possibly be used as a potential blood-based biomarker to differentiate between high and low grade gliomas, non-gliomas and control samples. D.A. Spandidos 2017-01 2016-11-29 /pmc/articles/PMC5355666/ /pubmed/28004117 http://dx.doi.org/10.3892/or.2016.5285 Text en Copyright: © Ponnampalam et al. This is an open access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License (https://creativecommons.org/licenses/by-nc-nd/4.0/) , which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made. |
spellingShingle | Articles Ponnampalam, Stephen N. Kamaluddin, Nor Rizan Zakaria, Zubaidah Matheneswaran, Vickneswaran Ganesan, Dharmendra Haspani, Mohammed Saffari Ryten, Mina Hardy, John A. A blood-based gene expression and signaling pathway analysis to differentiate between high and low grade gliomas |
title | A blood-based gene expression and signaling pathway analysis to differentiate between high and low grade gliomas |
title_full | A blood-based gene expression and signaling pathway analysis to differentiate between high and low grade gliomas |
title_fullStr | A blood-based gene expression and signaling pathway analysis to differentiate between high and low grade gliomas |
title_full_unstemmed | A blood-based gene expression and signaling pathway analysis to differentiate between high and low grade gliomas |
title_short | A blood-based gene expression and signaling pathway analysis to differentiate between high and low grade gliomas |
title_sort | blood-based gene expression and signaling pathway analysis to differentiate between high and low grade gliomas |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5355666/ https://www.ncbi.nlm.nih.gov/pubmed/28004117 http://dx.doi.org/10.3892/or.2016.5285 |
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