aenmd:对具有蛋白质截断变体的转录来说,注释从无意中介衰变中逃脱
Jonathan Klonowski1, Qianqian Liang1, Zeynep Coban-Akdemir2
1Department of Developmental Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15201, United States.
Bioinformatics (Oxford, England)
|September 9, 2023
概括
一个名为aenmd的新软件识别了导致过早终止密码子 (PTCs) 和逃脱无意义介导的mRNA衰变 (NMD) 的人类DNA变异. 这有助于了解疾病中的主导-负或功能增益等位基因.
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:
- 过早终止的代码子 (PTC) 在致病性基因组变异中很常见.
- 无意义介导的mRNA衰变 (NMD) 通常导致PTCs的功能丧失.
- 一些PTC逃脱了NMD,导致主导负面或功能获取 (DN/GOF) 效应.
研究的目的:
- 系统地识别导致人类PTC的变种.
- 预测含有PTC的转录对NMD的敏感性.
- 研究DN/GOF等位基因在人类疾病中的作用.
主要方法:
- 开发aenmd,一个用户友好的,独立的软件.
- 实施NMD逃逸预测的既定和实验验证规则.
- 在大型基因组数据库 (gnomAD,Clinvar,GWAS目录) 中应用aenmd.
主要成果:
- aenmd为NMD逃生预测注释了含有PTC的转录变异对.
- 该软件与现有的分析工作流程无集成,并可在规模上运行.
- 在主要数据库中报告了人类PTC变体和潜在DN/GOF变体的患病率.
结论:
- aenmd提供了识别PTC变体和预测NMD逃逸的基本功能.
- 这些发现有助于理解DN/GOF等位基因对人类疾病的贡献.
- 该软件以R包和命令行接口的形式提供.
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