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LnCeVar 2.0:更新了基因组变异的资源和网络工具,以从单细胞/空间转录组学数据中破坏ceRNA网络

Qiuyan Guo¹, Qian Liu², Mengyu Xin²

¹Department of Gynecology, the First Affiliated Hospital of Harbin Medical University, Harbin 150081, China.

Nucleic acids research

|October 16, 2025

概括

LnCeVar 2.0 是一个更新的基因组变异数据库,使用单细胞和空间转录组学来破坏竞争的内源RNA (ceRNA) 网络. 它增强了对复杂疾病中SNV-ceRNA事件的理解.

科学领域:

基因组学就是基因组学.
分子生物学分子生物学
生物信息学是一种生物信息学.

背景情况:

竞争的内源RNA (ceRNA) 网络在基因调节中起着至关重要的作用.
基因组变异,特别是单核酸变异 (SNVs),可以破坏这些网络.
了解这些干扰对于破译复杂的疾病机制至关重要.

研究的目的:

更新和扩展LnCeVar数据库,以新型基因组变异数据影响ceRNA网络.
为分析单细胞和空间分辨率的SNV-ceRNA相互作用提供工具.
促进疾病生态系统中调控机制的高分辨率调查.

主要方法:

整合了16,937种癌症生物标志物和5,785种经过验证的ceRNA相互作用.
包括812个单细胞RNA测序/空间转录组学数据集,涵盖102种疾病.
在数百万个细胞/斑点中分析了超过520万个SNV-ceRNA事件.
开发17种用于多层次交叉分析和3D可视化的工具.

主要成果:

LnCeVar 2.0 包含了有关与癌症病原发生有关的SNV-ceRNA事件的广泛数据.
数据库包括数百万个细胞和空间特定的SNV-ceRNA事件.
提供了SNV对细胞类型,状态和功能影响的新推断.
使用者友好的界面 (CeVarState,CeVarSC3D,CeVarST3D) 允许进行详细的分析和可视化.

结论:

LnCeVar 2.0提供了一个全面的资源,用于研究ceRNA网络中的基因组变异.
该数据库有助于对SNV-ceRNA相互作用进行高分辨率的研究.
本资源促进了对复杂疾病生态系统中的调节机制的理解.

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