Shandong Provincial Key Laboratory of Biophysics, Institute of Biophysics, Dezhou University, Dezhou 253023, China.
College of Physics and Electronic Information, Dezhou University, Dezhou 253023, China.
Nucleic Acids Res. 2021 Jan 8;49(D1):D86-D91. doi: 10.1093/nar/gkaa1076.
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/.
长链非编码 RNA（lncRNA）在许多不同的生物学过程中发挥着重要的功能作用。然而，并非所有表达的 lncRNA 都具有功能。因此，有必要在一个中央数据库中手动收集所有经过实验验证的功能性 lncRNA（EVlncRNA），并对其序列、结构和功能进行注释。第一个这样的数据库（EVLncRNAs）是使用截至 2016 年 5 月 1 日之前的文献发布的。自那时以来（截至 2020 年 5 月 15 日），已经发表了 19245 篇与 lncRNA 相关的文章。在 EVLncRNAs 2.0 中，这些文章经过了手动检查，以对收集的数据进行了重大扩展。具体来说，注释的 EVlncRNA、相关疾病、lncRNA-疾病关联和相互作用记录分别增加了 260%、320%、484%和 537%。此外，该数据库增加了几个新类别：8 种 lncRNA 结构、33 种外泌体 lncRNA、188 种环状 RNA 和 1079 种耐药、化疗耐药和应激耐药 lncRNA。所有记录都与已知的撤回和虚假文章进行了核对。这个版本还附带了一个高度互动的可视化交互网络，方便用户跟踪 lncRNA、miRNA、蛋白质、基因和其他功能元素之间的潜在关系。此外，它还提供了四个新的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-biophysics-dzu.net/EVLncRNAs2/ 免费获得。
