A pan‐cancer atlas of cancer hallmark‐associated candidate driver lncRNAs
| Autor: | Chunyu Deng, Xinxin Zhang, Tingting Zhao, Yulan Deng, Gaoming Liao, Shangyi Luo, Yun Xiao, Yujia Lan, Huating Yuan, Xia Li, Chaoxia Zou, Liwen Xu, Xu Gao |
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| Jazyk: | angličtina |
| Rok vydání: | 2018 |
| Předmět: |
0301 basic medicine
Cancer genome sequencing Cancer Research copy number alteration Computational biology cancer hallmark Biology Mutually exclusive events medicine.disease_cause lcsh:RC254-282 Metastasis 03 medical and health sciences Breast cancer Neoplasms driver lncRNA mutual exclusivity Databases Genetic Genetics medicine Humans Gene Regulatory Networks RNA Neoplasm Gene Research Articles Pan cancer General Medicine lcsh:Neoplasms. Tumors. Oncology. Including cancer and carcinogens medicine.disease Gene Expression Regulation Neoplastic 030104 developmental biology Oncology Molecular Medicine Adenocarcinoma RNA Long Noncoding pan‐cancer atlas Carcinogenesis Research Article |
| Zdroj: | Molecular Oncology Molecular Oncology, Vol 12, Iss 11, Pp 1980-2005 (2018) |
| ISSN: | 1878-0261 1574-7891 |
| Popis: | Substantial cancer genome sequencing efforts have discovered many important driver genes contributing to tumorigenesis. However, very little is known about the genetic alterations of long non‐coding RNAs (lncRNAs) in cancer. Thus, there is a need for systematic surveys of driver lncRNAs. Through integrative analysis of 5918 tumors across 11 cancer types, we revealed that lncRNAs have undergone dramatic genomic alterations, many of which are mutually exclusive with well‐known cancer genes. Using the hypothesis of functional redundancy of mutual exclusivity, we developed a computational framework to identify driver lncRNAs associated with different cancer hallmarks. Applying it to pan‐cancer data, we identified 378 candidate driver lncRNAs whose genomic features highly resemble the known cancer driver genes (e.g. high conservation and early replication). We further validated the candidate driver lncRNAs involved in ‘Tissue Invasion and Metastasis’ in lung adenocarcinoma and breast cancer, and also highlighted their potential roles in improving clinical outcomes. In summary, we have generated a comprehensive landscape of cancer candidate driver lncRNAs that could act as a starting point for future functional explorations, as well as the identification of biomarkers and lncRNA‐based target therapy. |
| Databáze: | OpenAIRE |
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