MetalinksDB:一个灵活和可 contextualizable 的代谢物-蛋白相互作用的资源
Elias Farr1,2, Daniel Dimitrov1, Christina Schmidt1
1Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine, Im Neuenheimer Feld 130.3, 69120, Heidelberg, Germany.
我们开发了MetalinksDB,这是一个全面的代谢物-蛋白相互作用数据库,以了解细胞-细胞通信. 该资源通过整合各种生物数据,帮助发现与疾病相关的信号通路.
科学领域:
- 细胞生物学和生物化学
- 生物信息学和计算生物学
- 系统生物学 系统生物学
背景情况:
- 代谢物-蛋白质相互作用对于细胞功能至关重要,包括通过与受体结合的分泌代谢物进行细胞-细胞通信.
- 推断代谢物介导的细胞间信号传递是具有挑战性的,因为先前知识资源有限.
- 目前对代谢物与受体相互作用的现有资源很少,缺乏特定的背景.
研究的目的:
- 创建一个关于细胞间代谢物-蛋白相互作用的全面和可定制数据库.
- 克服研究代谢物介导的细胞-细胞通信现有资源的局限性.
- 为了促进疾病相关的信号过程的发现.
主要方法:
- 杆知识图基础设施,以整合一般的代谢物-蛋白相互作用与精选的代谢物-受体数据.
- 开发了MetalinksDB,这是对代谢物与受体相互作用的扩展资源.
- 根据特定的生物背景来定制数据库,如疾病,途径或组织位置.
主要成果:
- MetalinksDB是一个数量级大于现有的代谢物-受体资源.
- 通过使用多omics数据,在癌中识别放松调节过程的证明有用性.
- 在急性损伤中使用空间转录学推断的代谢物驱动的细胞间信号传递.
结论:
- MetalinksDB为细胞间代谢物-蛋白相互作用提供了一个全面和可定制的资源.
- 该数据库促进了特定上下文的分析,有助于发现疾病相关的代谢物介导细胞间信号传递.
- MetalinksDB可以通过Web界面访问,并以知识图的形式编程.
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