通过使用ConnecTF集成验证的TF-目标基因相互作用,构建高可靠性基因监管网络
Ji Huang1, Manpreet S Katari1, Che-Lun Juang1
1Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, USA.
Methods in molecular biology (Clifton, N.J.)
|September 8, 2023
概括
研究人员开发了ConnecTF,这是一个集成植物转录因子 (TF) 目标基因数据的网络平台. 该工具有助于剖析基因调节网络,并了解TF在植物发育和应激反应中的作用.
科学领域:
- 植物分子生物学 植物分子生物学
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
背景情况:
- 有许多实验和计算方法用于识别植物转录因子 (TF) 目标.
- 每种方法都有局限性,需要数据集成才能准确地重建基因调节网络.
- 了解TF-目标相互作用对于破译植物发育和应激反应至关重要.
研究的目的:
- 推出ConnecTF,一个用于整合和分析TF目标基因相互作用数据集的网络平台.
- 为了促进TF在植物发育和应激反应途径中的作用的剖析.
- 为研究界提供一个资源来分析TF-target的相互作用.
主要方法:
- 开发ConnecTF网络平台 (https://connectf.org/),用于整合TF目标基因相互作用.
- 使用玉米TFs KN1和RA1作为示例来展示平台功能.
- 结合TF-binding和TF-regulation数据集,以区分直接与间接目标.
主要成果:
- 通过ConnecTF,可以比较不同TF的目标基因.
- 该平台有助于识别直接与间接的TF目标.
- ConnecTF允许可视化TF目标网络路径和修剪推断网络.
结论:
- ConnecTF为整合和分析各种TF-target交互数据提供了宝贵的资源.
- 该平台有助于全面了解植物中的基因调节网络.
- ConnecTF支持植物生物学中TF功能的研究,并可用于特定研究小组的私人部署.
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