Chair for Clinical Bioinformatics, Saarland Informatics Campus, Saarland University, Germany.
Center for Bioinformatics, Saarland Informatics Campus, Saarland University, Germany.
Nucleic Acids Res. 2018 Jan 4;46(D1):D160-D167. doi: 10.1093/nar/gkx851.
The continuous increase of available biological data as consequence of modern high-throughput technologies poses new challenges for analysis techniques and database applications. Especially for miRNAs, one class of small non-coding RNAs, many algorithms have been developed to predict new candidates from next-generation sequencing data. While the amount of publications describing novel miRNA candidates keeps steadily increasing, the current gold standard database for miRNAs - miRBase - has not been updated since June 2014. As a result, publications describing new miRNA candidates in the last three to five years might have a substantial overlap of candidates without noticing. With miRCarta we implemented a database to collect novel miRNA candidates and augment the information provided by miRBase. In the first stage, miRCarta is thought to be a highly sensitive collection of potential miRNA candidates with a high degree of analysis functionality, annotations and details on each miRNA. We added-besides the full content of the miRBase-12,857 human miRNA precursors to miRCarta. Users can match their own predictions to the entries of miRCarta to reduce potential redundancies in their studies. miRCarta provides the most comprehensive collection of human miRNAs and miRNA candidates to form a basis for further refinement and validation studies. The database is freely accessible at https://mircarta.cs.uni-saarland.de/.
由于现代高通量技术的发展，可用的生物数据不断增加，这给分析技术和数据库应用带来了新的挑战。特别是对于 miRNA 这一小段非编码 RNA 来说，已经开发出了许多算法来从下一代测序数据中预测新的候选 miRNA。虽然描述新 miRNA 候选物的出版物数量在不断增加，但 miRNA 的当前黄金标准数据库 miRBase 自 2014 年 6 月以来一直没有更新。因此，过去三到五年间描述新 miRNA 候选物的出版物可能会在没有注意到的情况下出现大量候选物的重叠。我们通过 miRCarta 数据库来收集新的 miRNA 候选物，并补充 miRBase 提供的信息。在第一阶段，miRCarta 被认为是一个具有高度分析功能、注释和每个 miRNA 详细信息的潜在 miRNA 候选物的高度敏感集合。除了 miRBase 中的全部内容外，我们还将 12857 个人类 miRNA 前体添加到了 miRCarta 中。用户可以将他们自己的预测与 miRCarta 的条目进行匹配，以减少他们研究中的潜在冗余。miRCarta 提供了最全面的人类 miRNA 和 miRNA 候选物集合，为进一步的细化和验证研究提供了基础。该数据库可在 https://mircarta.cs.uni-saarland.de/ 免费访问。
