KnockRBP:一个对RNA结合蛋白的功能性扰动概况的综合多omics数据库
Mengyuan Yang1,2,3, Jiawei Li4, Jiajia Liu5
1Department of Cell Biology and Genetics, School of Basic Medical Sciences, Xi'an Jiaotong University Health Science Center, Xi'an, Shaanxi 710061, China.
Nucleic acids research
|October 29, 2025
概括
KnockRBP是一个新的数据库,它对跨多个分子层的RNA结合蛋白 (RBP) 调控变化进行了分类. 它整合了多omics数据,揭示了RBP在转录后调节和人类疾病中的功能.
科学领域:
- 基因组学和分子生物学
- 生物信息学和计算生物学
背景情况:
- RNA结合蛋白 (RBPs) 控制关键的转录后基因调节,但它们的综合功能影响尚未完全理解.
- 调查RBP功能需要整合数据跨多个分子水平.
研究的目的:
- 开发KnockRBP,一个全面的多omics数据库,详细说明从遗传RBP扰乱引起的监管变化.
- 为探索RBP介导的转录后调节及其与人类疾病的联系提供资源.
主要方法:
- 整合了1453个数据集 (RNA-seq,Ribo-seq,miRNA-seq,3'RACE-seq) 来自公共存储库 (GEO,ENA,ENCORE) 的数据集.
- 涵盖了639个RBP,182个细胞系和61种疾病,分析了替代拼接,多基化,RNA编辑,转录丰度,翻译效率和miRNA表达.
- 标准化分析管道用于注释,包括ORF后果,预测功能丧失和疾病/药物关联.
主要成果:
- KnockRBP系统地列出与RBP扰动相关的多omics数据.
- 该数据库可以探索RBP特定的监管事件及其在分子层上的后果.
- 综合分析模块有助于确定监管事件的优先级,并推断跨层监管机制.
结论:
- 诺克RBP提供了一个独特的资源,通过整合多omics数据与RBP的干扰感知功能注释.
- 它促进了对转录后调节的机制研究以及对RBP受影响的基因和事件的识别.
- 这个免费访问的数据库作为一个社区资源,促进RBP功能基因组学和疾病研究.
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