MOE Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China.
Department of Maternal, Child and Adolescent Health, School of Public Health, Anhui Medical University, MOE Key Laboratory of Population Health Across Life Cycle, NHC Key Laboratory of Study on Abnormal Gametes and Reproductive Tract, Anhui Provincial Key Laboratory of Population Health and Aristogenics, No 81 Meishan Road, Hefei 230032, Anhui, China.
Nucleic Acids Res. 2022 Jan 7;50(D1):D287-D294. doi: 10.1093/nar/gkab702.
RNA-binding proteins (RBPs) play key roles in post-transcriptional regulation. Accurate identification of RBP binding sites in multiple cell lines and tissue types from diverse species is a fundamental endeavor towards understanding the regulatory mechanisms of RBPs under both physiological and pathological conditions. Our POSTAR annotation processes make use of publicly available large-scale CLIP-seq datasets and external functional genomic annotations to generate a comprehensive map of RBP binding sites and their association with other regulatory events as well as functional variants. Here, we present POSTAR3, an updated database with improvements in data collection, annotation infrastructure, and analysis that support the annotation of post-transcriptional regulation in multiple species including: we made a comprehensive update on the CLIP-seq and Ribo-seq datasets which cover more biological conditions, technologies, and species; we added RNA secondary structure profiling for RBP binding sites; we provided miRNA-mediated degradation events validated by degradome-seq; we included RBP binding sites at circRNA junction regions; we expanded the annotation of RBP binding sites, particularly using updated genomic variants and mutations associated with diseases. POSTAR3 is freely available at http://postar.ncrnalab.org.
RNA 结合蛋白（RBPs）在后转录调控中发挥着关键作用。准确识别来自不同物种的多种细胞系和组织类型中的 RBP 结合位点，是理解 RBPs 在生理和病理条件下的调控机制的基础。我们的 POSTAR 注释过程利用公开的大规模 CLIP-seq 数据集和外部功能基因组注释，生成 RBP 结合位点及其与其他调控事件和功能变体关联的综合图谱。在这里，我们展示了 POSTAR3，这是一个经过改进的数据收集、注释基础设施和分析的更新数据库，支持多种物种的转录后调控注释，包括：我们对 CLIP-seq 和 Ribo-seq 数据集进行了全面更新，涵盖了更多的生物条件、技术和物种；我们添加了 RNA 二级结构对 RBP 结合位点的分析；我们提供了经降解组测序验证的 miRNA 介导的降解事件；我们包括了 circRNA 连接区的 RBP 结合位点；我们扩展了 RBP 结合位点的注释，特别是使用了与疾病相关的更新基因组变体和突变。POSTAR3 可在 http://postar.ncrnalab.org 免费获取。
