利用预测的玉米泛交互组来预测基因功能的预测和对候选基因优先考虑重要的特征
Elly Poretsky1, Halise Busra Cagirici1, Carson M Andorf2,3
1Crop Improvement and Genetics Research Unit, U.S. Department of Agriculture, Agricultural Research Service, 800 Buchanan St., Albany, CA 94710, USA.
G3 (Bethesda, Md.)
|March 16, 2024
概括
我们为26个玉米基因组生成了预测的蛋白质-蛋白质相互作用网络,为了解基因功能和优先考虑重要的农业特征创造了宝贵的资源.
科学领域:
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
- 植物科学 植物科学
背景情况:
- 玉米 (Zea mays) 嵌套协会绘制人口创始人杂交已经组装和注释.
- 全基因组比较研究将全转录组数据与特征特定基因候选人整合在一起.
- 由于成本和复杂性,蛋白质与蛋白质相互作用 (PPI) 数据采集具有挑战性.
研究的目的:
- 为26个玉米基因组生成预测PPI网络.
- 将单个基因组互动体整合到核心和泛互动体中.
- 功能性注释PPI集群用于蛋白质功能预测和候选基因优先级.
主要方法:
- 使用STRING数据库预测的PPI网络,用于26个玉米基因组中的每一个.
- 单个基因组互动体的整合,以创建核心和泛互动体.
- 使用ClusterONE对PPI网络进行集群,并通过基因本体学 (GO) 丰富,基因协同表达和基因描述进行功能注释.
主要成果:
- 为26个玉米基因组生成预测PPI网络.
- 确定了许多PPI集群,具有各种丰富的GO术语.
- 综合基因协同表达和描述数据,用于增强集群注释.
- 展示了PPI集群作为蛋白质功能预测和候选基因优先级的框架.
结论:
- 该研究为26个玉米基因组提供了预测PPI网络的全面资源.
- 有注释的互动原子集群有助于蛋白质功能的预测和基因候选者的优先排序.
- 开发的工作流和Web应用程序为玉米研究提供了可访问的工具.
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