Comprehensive Genomic Characterization of Long Non-coding RNAs across Human Cancers

Xiaohui Yan, Zhongyi Hu, Yi Feng, Xiaowen Hu, Jiao Yuan, Sihai D. Zhao, Youyou Zhang, Lu Yang, Weiwei Shan, Qun He, Lingling Fan, Lana E. Kandalaft, Janos L. Tanyi, Chunsheng Li, Chao Xing Yuan, Dongmei Zhang, Huiqing Yuan, Keqin Hua, Yiling Lu, Dionyssios KatsarosQihong Huang, Kathleen Montone, Yi Fan, George Coukos, Jeff Boyd, Anil K. Sood, Timothy Rebbeck, Gordon B. Mills, Chi V. Dang, Lin Zhang

    Research output: Contribution to journalArticle

    320 Scopus citations

    Abstract

    The discovery of long non-coding RNA (lncRNA) has dramatically altered our understanding of cancer. Here, we describe a comprehensive analysis of lncRNA alterations at transcriptional, genomic, and epigenetic levels in 5,037 human tumor specimens across 13 cancer types from The Cancer Genome Atlas. Our results suggest that the expression and dysregulation of lncRNAs are highly cancer type specific compared with protein-coding genes. Using the integrative data generated by this analysis, we present a clinically guided small interfering RNA screening strategy and a co-expression analysis approach to identify cancer driver lncRNAs and predict their functions. This provides a resource for investigating lncRNAs in cancer and lays the groundwork for the development of new diagnostics and treatments.

    Original languageEnglish (US)
    Article number2143
    Pages (from-to)529-540
    Number of pages12
    JournalCancer Cell
    Volume28
    Issue number4
    DOIs
    StatePublished - Oct 12 2015

    ASJC Scopus subject areas

    • Oncology
    • Cell Biology
    • Cancer Research

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  • Cite this

    Yan, X., Hu, Z., Feng, Y., Hu, X., Yuan, J., Zhao, S. D., Zhang, Y., Yang, L., Shan, W., He, Q., Fan, L., Kandalaft, L. E., Tanyi, J. L., Li, C., Yuan, C. X., Zhang, D., Yuan, H., Hua, K., Lu, Y., ... Zhang, L. (2015). Comprehensive Genomic Characterization of Long Non-coding RNAs across Human Cancers. Cancer Cell, 28(4), 529-540. [2143]. https://doi.org/10.1016/j.ccell.2015.09.006