Department of Pediatric Cardiology and Critical Care, Hannover Medical School, Hannover 30625, Germany.
Competence Network for Congenital Heart Defects (CNCHD), Berlin, Germany.
STAR Protoc. 2021 Aug 25;2(3):100769. doi: 10.1016/j.xpro.2021.100769. eCollection 2021 Sep 17.
Total RNA sequencing allows capturing of long non-coding and circular RNA along with mRNA. Additional sequencing of micro RNA (miRNA), using libraries with shorter fragments, provides the means to characterize miRNA-driven transcriptional regulation. Here, we present a protocol for processing total RNA and miRNA sequencing data to quantify circular RNA, long non-coding RNA, mRNA, and miRNA. Further, the protocol combines the quantification data with miRNA target annotation to construct likely transcriptional regulatory networks, which can be validated in the subsequent studies. For complete details on the use and execution of this protocol, please refer to Chouvarine et al. (2021).
总 RNA 测序允许与 mRNA 一起捕获长非编码 RNA 和环状 RNA。使用具有较短片段的文库进行额外的 microRNA (miRNA) 测序，为 miRNA 驱动的转录调控特征提供了手段。在这里，我们提出了一个处理总 RNA 和 miRNA 测序数据以定量环状 RNA、长非编码 RNA、mRNA 和 miRNA 的方案。此外，该方案将定量数据与 miRNA 靶标注释相结合，构建可能的转录调控网络，这些网络可以在后续研究中进行验证。有关此方案的使用和执行的完整详细信息，请参阅 Chouvarine 等人（2021 年）。
