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Identification and validation of a 44-gene expression signature for the classification of renal cell carcinomas
BACKGROUND: Renal cancers account for more than 3% of all adult malignancies and cause more than 23,400 deaths per year in China alone. The four most common types of kidney tumours include clear cell, papillary, chromophobe and benign oncocytoma. These histological subtypes vary in their clinical co...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5717815/ https://www.ncbi.nlm.nih.gov/pubmed/29208006 http://dx.doi.org/10.1186/s13046-017-0651-9 |
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author | Wang, Qifeng Gan, Hualei Chen, Chengshu Sun, Yifeng Chen, Jinying Xu, Midie Weng, Weiwei Cao, Liyu Xu, Qinghua Wang, Jian |
author_facet | Wang, Qifeng Gan, Hualei Chen, Chengshu Sun, Yifeng Chen, Jinying Xu, Midie Weng, Weiwei Cao, Liyu Xu, Qinghua Wang, Jian |
author_sort | Wang, Qifeng |
collection | PubMed |
description | BACKGROUND: Renal cancers account for more than 3% of all adult malignancies and cause more than 23,400 deaths per year in China alone. The four most common types of kidney tumours include clear cell, papillary, chromophobe and benign oncocytoma. These histological subtypes vary in their clinical course and prognosis, and different clinical strategies have been developed for their management. Some kidney tumours can be very difficult to distinguish based on the pathological assessment of morphology and immunohistochemistry. METHODS: Six renal cell carcinoma microarray data sets, including 106 clear cell, 66 papillary, 42 chromophobe, 46 oncocytoma and 35 adjacent normal tissue samples, were subjected to integrative analysis. These data were combined and used as a training set for candidate gene expression signature identification. In addition, two independent cohorts of 1020 RNA-Seq samples from The Cancer Genome Atlas database and 129 qRT-PCR samples from Fudan University Shanghai Cancer Center (FUSCC) were analysed to validate the selected gene expression signature. RESULTS: A 44-gene expression signature derived from microarray analysis was strongly associated with the histological differentiation of renal tumours and could be used for tumour subtype classification. The signature performance was further validated in 1020 RNA-Seq samples and 129 qRT-PCR samples with overall accuracies of 93.4 and 93.0%, respectively. CONCLUSIONS: A 44-gene expression signature that could accurately discriminate renal tumour subtypes was identified in this study. Our results may prompt further development of this gene expression signature into a molecular assay amenable to routine clinical practice. |
format | Online Article Text |
id | pubmed-5717815 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-57178152017-12-08 Identification and validation of a 44-gene expression signature for the classification of renal cell carcinomas Wang, Qifeng Gan, Hualei Chen, Chengshu Sun, Yifeng Chen, Jinying Xu, Midie Weng, Weiwei Cao, Liyu Xu, Qinghua Wang, Jian J Exp Clin Cancer Res Research BACKGROUND: Renal cancers account for more than 3% of all adult malignancies and cause more than 23,400 deaths per year in China alone. The four most common types of kidney tumours include clear cell, papillary, chromophobe and benign oncocytoma. These histological subtypes vary in their clinical course and prognosis, and different clinical strategies have been developed for their management. Some kidney tumours can be very difficult to distinguish based on the pathological assessment of morphology and immunohistochemistry. METHODS: Six renal cell carcinoma microarray data sets, including 106 clear cell, 66 papillary, 42 chromophobe, 46 oncocytoma and 35 adjacent normal tissue samples, were subjected to integrative analysis. These data were combined and used as a training set for candidate gene expression signature identification. In addition, two independent cohorts of 1020 RNA-Seq samples from The Cancer Genome Atlas database and 129 qRT-PCR samples from Fudan University Shanghai Cancer Center (FUSCC) were analysed to validate the selected gene expression signature. RESULTS: A 44-gene expression signature derived from microarray analysis was strongly associated with the histological differentiation of renal tumours and could be used for tumour subtype classification. The signature performance was further validated in 1020 RNA-Seq samples and 129 qRT-PCR samples with overall accuracies of 93.4 and 93.0%, respectively. CONCLUSIONS: A 44-gene expression signature that could accurately discriminate renal tumour subtypes was identified in this study. Our results may prompt further development of this gene expression signature into a molecular assay amenable to routine clinical practice. BioMed Central 2017-12-06 /pmc/articles/PMC5717815/ /pubmed/29208006 http://dx.doi.org/10.1186/s13046-017-0651-9 Text en © The Author(s). 2017 Open AccessThis 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. |
spellingShingle | Research Wang, Qifeng Gan, Hualei Chen, Chengshu Sun, Yifeng Chen, Jinying Xu, Midie Weng, Weiwei Cao, Liyu Xu, Qinghua Wang, Jian Identification and validation of a 44-gene expression signature for the classification of renal cell carcinomas |
title | Identification and validation of a 44-gene expression signature for the classification of renal cell carcinomas |
title_full | Identification and validation of a 44-gene expression signature for the classification of renal cell carcinomas |
title_fullStr | Identification and validation of a 44-gene expression signature for the classification of renal cell carcinomas |
title_full_unstemmed | Identification and validation of a 44-gene expression signature for the classification of renal cell carcinomas |
title_short | Identification and validation of a 44-gene expression signature for the classification of renal cell carcinomas |
title_sort | identification and validation of a 44-gene expression signature for the classification of renal cell carcinomas |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5717815/ https://www.ncbi.nlm.nih.gov/pubmed/29208006 http://dx.doi.org/10.1186/s13046-017-0651-9 |
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