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ncPlantDB:一个具有潜在ncPEP信息和细胞类型特定相互作用的植物ncRNA数据库

Liya Liu¹, Enyan Liu¹, Yueming Hu¹

¹Department of Bioinformatics, College of Life Sciences, Zhejiang University, Hangzhou 310058, China.

Nucleic acids research

|October 29, 2024

概括

一个名为ncPlantDB的新数据库整合了43个物种的植物非编码RNA (ncRNA) 和它们编码的 (ncPEP). 它揭示了细胞特异性相互作用,增强了对植物基因调节和ncPEP发现的理解.

科学领域:

植物基因组学和分子生物学
非编码RNA (ncRNA) 的研究.
体生物学体生物学

背景情况:

非编码RNAs (ncRNAs) 是植物在发育和压力期间基因表达的关键调节者.
ncRNAs可以编码 (ncPEPs),这是一个快速涌现的研究领域.
目前的植物ncRNA数据库缺乏全面的ncPEP数据和细胞特异性相互作用信息.

研究的目的:

开发一个全面的数据库,ncPlantDB,整合43种植物的ncRNA和ncPEP数据.
解决关于ncPEP及其细胞特异相互作用的知识差距.
为探索ncRNA功能和潜在编码能力提供一个用户友好的平台.

主要方法:

来自已建立的数据库和文献挖掘的综合数据.
纳入了ncRNAs的翻译潜力数据.
使用单细胞RNA测序和Ribo-seq数据生成细胞特异性相互作用网络.

主要成果:

在 ncPlantDB 中包含 353,140 个 ncRNA, 3,799 个 ncPEP 和 4,647,071 个相互作用.
该数据库具有细胞特异性交互网络和可视化工具.
用户友好的界面允许探索单细胞ncRNA表达模式.

结论:

ncPlantDB是植物ncRNA和ncPEP研究的宝贵资源.
促进发现组织特定的ncRNA和潜在的ncPEP.
增强对植物ncRNA生物学和调控网络的理解.

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