Abstract

Long non-coding RNAs (lncRNAs) play important functional roles in many diverse biological processes. However, not all expressed lncRNAs are functional. Thus, it is necessary to manually collect all experimentally validated functional lncRNAs (EVlncRNA) with their sequences, structures, and functions annotated in a central database. The first release of such a database (EVLncRNAs) was made using the literature prior to 1 May 2016. Since then (till 15 May 2020), 19 245 articles related to lncRNAs have been published. In EVLncRNAs 2.0, these articles were manually examined for a major expansion of the data collected. Specifically, the number of annotated EVlncRNAs, associated diseases, lncRNA-disease associations, and interaction records were increased by 260%, 320%, 484% and 537%, respectively. Moreover, the database has added several new categories: 8 lncRNA structures, 33 exosomal lncRNAs, 188 circular RNAs, and 1079 drug-resistant, chemoresistant, and stress-resistant lncRNAs. All records have checked against known retraction and fake articles. This release also comes with a highly interactive visual interaction network that facilitates users to track the underlying relations among lncRNAs, miRNAs, proteins, genes and other functional elements. Furthermore, it provides links to four new bioinformatics tools with improved data browsing and searching functionality. EVLncRNAs 2.0 is freely available at https://www.sdklab-biophysics-dzu.net/EVLncRNAs2/.

中文翻译：

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EVLncRNAs 2.0：通过低通量实验验证的手动策划的功能性长非编码RNA的更新数据库

 抽象的

长链非编码 RNA (lncRNA) 在许多不同的生物过程中发挥着重要的功能作用。然而，并非所有表达的 lncRNA 都有功能。因此，有必要手动收集所有经过实验验证的功能性lncRNA（EVlncRNA），并将其序列、结构和功能注释在中央数据库中。该数据库（EVLncRNA）的首次发布是利用2016年5月1日之前的文献制作的。此后（截至2020年5月15日），已发表了19 245篇与lncRNA相关的文章。在 EVLncRNAs 2.0 中，对这些文章进行了手动检查，以大幅扩展所收集的数据。具体来说，注释的 EVlncRNA、相关疾病、lncRNA-疾病关联和相互作用记录的数量分别增加了 260%、320%、484% 和 537%。此外，该数据库还添加了几个新类别：8个lncRNA结构、33个外泌体lncRNA、188个环状RNA和1079个耐药、化疗和应激抗性lncRNA。所有记录均已针对已知的撤稿和假文章进行了检查。该版本还附带高度交互的视觉交互网络，方便用户追踪lncRNA、miRNA、蛋白质、基因和其他功能元件之间的潜在关系。此外，它还提供了四种新生物信息学工具的链接，这些工具具有改进的数据浏览和搜索功能。 EVLncRNAs 2.0 可在 https://www.sdklab-biophysicals-dzu.net/EVLncRNAs2/ 上免费获取。