Cargando…
A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte
BACKGROUND: Uveal melanoma is the most common primary intraocular tumor in adults in western countries. It is associated with very severe visual morbidity and may lead to distant metastases even after successful treatment of the primary tumor. In order to gain better insight into molecular mechanism...
Autores principales: | , , , , , , , , , , , , |
---|---|
Formato: | Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2011
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3030591/ https://www.ncbi.nlm.nih.gov/pubmed/21305041 http://dx.doi.org/10.1371/journal.pone.0016516 |
_version_ | 1782197281812905984 |
---|---|
author | An, Jianhong Wan, Haolei Zhou, Xiangtian Hu, Dan-Ning Wang, Ledan Hao, Lili Yan, Dongsheng Shi, Fanjun Zhou, Zhonglou Wang, Jiao Hu, Songnian Yu, Jun Qu, Jia |
author_facet | An, Jianhong Wan, Haolei Zhou, Xiangtian Hu, Dan-Ning Wang, Ledan Hao, Lili Yan, Dongsheng Shi, Fanjun Zhou, Zhonglou Wang, Jiao Hu, Songnian Yu, Jun Qu, Jia |
author_sort | An, Jianhong |
collection | PubMed |
description | BACKGROUND: Uveal melanoma is the most common primary intraocular tumor in adults in western countries. It is associated with very severe visual morbidity and may lead to distant metastases even after successful treatment of the primary tumor. In order to gain better insight into molecular mechanisms related to tumorigenesis and metastasis of uveal melanoma, we used next-generation sequencing technology (SOLiD, Life Technologies) to acquire global transcriptome alteration between posterior uveal melanoma cells and normal uveal melanocyte. RESULTS: From mRNAs of the cultured uveal melanoma cells and normal uveal melanocytes, we annotated more than 3.7×10(7) and 2.7×10(7) sequencing tags based on human Ensembl databases, respectively. For detailed analysis, we chose 5155 well-annotated genes mainly involved in the MAPK signaling pathway, cell cycle, cell adhesion junction, apoptosis, and P53 signaling pathways as well as melanogenesis. In an effort to confirm the authenticity of our sequencing results, we validated twenty-one identically differentially expressed genes by using quantitative real time PCR from cultured cell lines of other posterior uveal melanoma cells and normal uveal melanocytes. CONCLUSION: We have identified a large number of potentially interesting genes for biological investigation of uveal melanoma. The expression profiling also provides useful resources for other functional genomic and transcriptome studies. These 21 potential genes could discriminate between uveal melanoma cells and normal uveal melanocyte, which may be indicative of tumorigenesis process. Our results further suggest that high-throughput sequencing technology provides a powerful tool to study mechanisms of tumogenesis in the molecular level. |
format | Text |
id | pubmed-3030591 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2011 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-30305912011-02-08 A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte An, Jianhong Wan, Haolei Zhou, Xiangtian Hu, Dan-Ning Wang, Ledan Hao, Lili Yan, Dongsheng Shi, Fanjun Zhou, Zhonglou Wang, Jiao Hu, Songnian Yu, Jun Qu, Jia PLoS One Research Article BACKGROUND: Uveal melanoma is the most common primary intraocular tumor in adults in western countries. It is associated with very severe visual morbidity and may lead to distant metastases even after successful treatment of the primary tumor. In order to gain better insight into molecular mechanisms related to tumorigenesis and metastasis of uveal melanoma, we used next-generation sequencing technology (SOLiD, Life Technologies) to acquire global transcriptome alteration between posterior uveal melanoma cells and normal uveal melanocyte. RESULTS: From mRNAs of the cultured uveal melanoma cells and normal uveal melanocytes, we annotated more than 3.7×10(7) and 2.7×10(7) sequencing tags based on human Ensembl databases, respectively. For detailed analysis, we chose 5155 well-annotated genes mainly involved in the MAPK signaling pathway, cell cycle, cell adhesion junction, apoptosis, and P53 signaling pathways as well as melanogenesis. In an effort to confirm the authenticity of our sequencing results, we validated twenty-one identically differentially expressed genes by using quantitative real time PCR from cultured cell lines of other posterior uveal melanoma cells and normal uveal melanocytes. CONCLUSION: We have identified a large number of potentially interesting genes for biological investigation of uveal melanoma. The expression profiling also provides useful resources for other functional genomic and transcriptome studies. These 21 potential genes could discriminate between uveal melanoma cells and normal uveal melanocyte, which may be indicative of tumorigenesis process. Our results further suggest that high-throughput sequencing technology provides a powerful tool to study mechanisms of tumogenesis in the molecular level. Public Library of Science 2011-01-28 /pmc/articles/PMC3030591/ /pubmed/21305041 http://dx.doi.org/10.1371/journal.pone.0016516 Text en An et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited. |
spellingShingle | Research Article An, Jianhong Wan, Haolei Zhou, Xiangtian Hu, Dan-Ning Wang, Ledan Hao, Lili Yan, Dongsheng Shi, Fanjun Zhou, Zhonglou Wang, Jiao Hu, Songnian Yu, Jun Qu, Jia A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte |
title | A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte |
title_full | A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte |
title_fullStr | A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte |
title_full_unstemmed | A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte |
title_short | A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte |
title_sort | comparative transcriptomic analysis of uveal melanoma and normal uveal melanocyte |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3030591/ https://www.ncbi.nlm.nih.gov/pubmed/21305041 http://dx.doi.org/10.1371/journal.pone.0016516 |
work_keys_str_mv | AT anjianhong acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT wanhaolei acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT zhouxiangtian acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT hudanning acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT wangledan acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT haolili acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT yandongsheng acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT shifanjun acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT zhouzhonglou acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT wangjiao acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT husongnian acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT yujun acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT qujia acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT anjianhong comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT wanhaolei comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT zhouxiangtian comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT hudanning comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT wangledan comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT haolili comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT yandongsheng comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT shifanjun comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT zhouzhonglou comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT wangjiao comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT husongnian comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT yujun comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte AT qujia comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte |