SELER: a database of super-enhancer-associated lncRNA- directed transcriptional regulation in human cancers
SELER: a database of super-enhancer-associated lncRNA- directed transcriptional regulation in human cancers
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SELER：人类癌症中超级增强子相关 lncRNA 定向转录调控的数据库
DOI：
10.1093/database/baz027
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发表时间：
2019-02-26
影响因子：
5.8
通讯作者：
Wu, Ying-Song
中科院分区：
文献类型：
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作者：
Guo, Zhi-Wei;Xie, Chen;Wu, Ying-Song
摘要超级增强子（SE）富含一组介体结合位点，它们是细胞特异性基因表达的主要贡献者。目前，已经发现大量的长链非编码RNA从SE转录或与SE相互作用，其构成超级增强子相关的长链非编码RNA（SE-lncRNA）。这些SE-lncRNA通过调控SEs的活性在转录调控中发挥重要作用，从而调节广泛的生理和病理过程，特别是肿瘤的发生。然而，SE-lncRNA在肿瘤发生中的病理功能仍然不清楚。在本文中，我们通过分析102个SE数据集来表征5056个SE-lncRNA及其相关基因。然后，我们分析了它们的表达谱和来自19种癌症类型的预后信息，以鉴定癌症相关的SE-lncRNA并探索它们的潜在功能。总共鉴定了436个显著差异表达的SE-lncRNA和2035个具有高预后价值的SE-lncRNA。此外，通过计算每种癌症类型中SE-lncRNA及其调控基因之间的相关系数，进一步验证了3935个SE-lncRNA及其调控基因之间的显著相关性。最后，提供包含上述数据的SELER数据库，供用户探索其生理和病理功能，全面了解生命系统的各个模块。
Abstract Super-enhancers (SEs) are enriched with a cluster of mediator binding sites, which are major contributors to cell-type-specific gene expression. Currently, a large quantity of long non-coding RNAs has been found to be transcribed from or to interact with SEs, which constitute super-enhancer associated long non-coding RNAs (SE-lncRNAs). These SE-lncRNAs play essential roles in transcriptional regulation through controlling SEs activity to regulate a broad range of physiological and pathological processes, especially tumorigenesis. However, the pathological functions of SE-lncRNAs in tumorigenesis are still obscure. In this paper, we characterized 5056 SE-lncRNAs and their associated genes by analysing 102 SE data sets. Then, we analysed their expression profiles and prognostic information derived from 19 cancer types to identify cancer-related SE-lncRNAs and to explore their potential functions. In total, 436 significantly differentially expressed SE-lncRNAs and 2035 SE-lncRNAs with high prognostic values were identified. Additionally, 3935 significant correlations between SE-lncRNAs and their regulatory genes were further validated by calculating their correlation coefficients in each cancer type. Finally, the SELER database incorporating the aforementioned data was provided for users to explore their physiological and pathological functions to comprehensively understand the blocks of living systems.