Selection and validation of endogenous reference genes using a high throughput approach
<p>Abstract</p> <p>Background</p> <p>Endogenous reference genes are commonly used to normalize expression levels of other genes with the assumption that the expression of the former is constant in different tissues and in different physiopathological conditions. Whether...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2004-08-01
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| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/5/55 |
| _version_ | 1818230948609654784 |
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| author | Su Hua Hu Nan Smith Kina Monsurró Vladia Nagorsen Dirk Panelli Monica C Ngalame Yvonne Zhao Yingdong Jin Ping Taylor Phil R Marincola Francesco M Wang Ena |
| author_facet | Su Hua Hu Nan Smith Kina Monsurró Vladia Nagorsen Dirk Panelli Monica C Ngalame Yvonne Zhao Yingdong Jin Ping Taylor Phil R Marincola Francesco M Wang Ena |
| author_sort | Su Hua |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Endogenous reference genes are commonly used to normalize expression levels of other genes with the assumption that the expression of the former is constant in different tissues and in different physiopathological conditions. Whether this assumption is correct it is, however, still matter of debate. In this study, we searched for stably expressed genes in 384 cDNA array hybridization experiments encompassing different tissues and cell lines.</p> <p>Results</p> <p>Several genes were identified whose expression was highly stable across all samples studied. The usefulness of 8 genes among them was tested by normalizing the relative gene expression against test genes whose expression pattern was known. The range of accuracy of individual endogenous reference genes was wide whereas consistent information could be obtained when information pooled from different endogenous reference genes was used.</p> <p>Conclusions</p> <p>This study suggests that even when the most stably expressed genes in array experiments are used as endogenous reference, significant variation in test gene expression estimates may occur and the best normalization is achieved when data from several endogenous reference genes are pooled together to minimize minimal but significant variation among samples. We are presently optimizing strategies for the preparation of endogenous reference gene mixtures that could yield information comparable to that of data pooled from individual endogenous reference gene normalizations.</p> |
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| format | Article |
| id | doaj.art-8dcee12335a9422a87df1116c72ce8a4 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-12T10:42:36Z |
| publishDate | 2004-08-01 |
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| spelling | doaj.art-8dcee12335a9422a87df1116c72ce8a42022-12-22T00:27:00ZengBMCBMC Genomics1471-21642004-08-01515510.1186/1471-2164-5-55Selection and validation of endogenous reference genes using a high throughput approachSu HuaHu NanSmith KinaMonsurró VladiaNagorsen DirkPanelli Monica CNgalame YvonneZhao YingdongJin PingTaylor Phil RMarincola Francesco MWang Ena<p>Abstract</p> <p>Background</p> <p>Endogenous reference genes are commonly used to normalize expression levels of other genes with the assumption that the expression of the former is constant in different tissues and in different physiopathological conditions. Whether this assumption is correct it is, however, still matter of debate. In this study, we searched for stably expressed genes in 384 cDNA array hybridization experiments encompassing different tissues and cell lines.</p> <p>Results</p> <p>Several genes were identified whose expression was highly stable across all samples studied. The usefulness of 8 genes among them was tested by normalizing the relative gene expression against test genes whose expression pattern was known. The range of accuracy of individual endogenous reference genes was wide whereas consistent information could be obtained when information pooled from different endogenous reference genes was used.</p> <p>Conclusions</p> <p>This study suggests that even when the most stably expressed genes in array experiments are used as endogenous reference, significant variation in test gene expression estimates may occur and the best normalization is achieved when data from several endogenous reference genes are pooled together to minimize minimal but significant variation among samples. We are presently optimizing strategies for the preparation of endogenous reference gene mixtures that could yield information comparable to that of data pooled from individual endogenous reference gene normalizations.</p>http://www.biomedcentral.com/1471-2164/5/55 |
| spellingShingle | Su Hua Hu Nan Smith Kina Monsurró Vladia Nagorsen Dirk Panelli Monica C Ngalame Yvonne Zhao Yingdong Jin Ping Taylor Phil R Marincola Francesco M Wang Ena Selection and validation of endogenous reference genes using a high throughput approach BMC Genomics |
| title | Selection and validation of endogenous reference genes using a high throughput approach |
| title_full | Selection and validation of endogenous reference genes using a high throughput approach |
| title_fullStr | Selection and validation of endogenous reference genes using a high throughput approach |
| title_full_unstemmed | Selection and validation of endogenous reference genes using a high throughput approach |
| title_short | Selection and validation of endogenous reference genes using a high throughput approach |
| title_sort | selection and validation of endogenous reference genes using a high throughput approach |
| url | http://www.biomedcentral.com/1471-2164/5/55 |
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