CURTAIN-一个独特的基于网络的工具,用于探索和共享基于MS的蛋白质组学数据
Toan K Phung1,2, Kerryn Berndsen1,2, Rosamund Shastry1,2
1Medical Research Council Protein Phosphorylation and Ubiquitylation Unit, School of Life Sciences, University of Dundee, Dundee DD1 5EH, United Kingdom.
概括
新的在线工具CURTAIN和CURTAIN-PTM,为非专家简化了质谱蛋白质组学数据分析. 这些平台增强了数据共享和可视化,使得人们能够更深入地了解蛋白质表达和翻译后修改.
科学领域:
- 蛋白质组学是指蛋白质组学.
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
背景情况:
- 基于质谱 (MS) 的蛋白质组学产生了需要专门分析的大型数据集.
- 对非专家来说,蛋白质组学数据的共享和互动探索可能具有挑战性.
- 目前的工具可能无法完全支持对蛋白质表达和翻译后修改 (PTM) 的全面分析.
研究的目的:
- 开发用户友好的在线工具CURTAIN和CURTAIN-PTM,用于基于MS的蛋白质组学数据的交互分析和共享.
- 为了使非MS专家能够可视化,分析和解释复杂的蛋白质组学数据集.
- 为了促进蛋白质结构,相互作用,表达和疾病关联的探索,以及PTM网站分析.
主要方法:
- 开发基于网络的平台CURTAIN和CURTAIN-PTM,并附有视频教程.
- 实现交互式可视化功能,包括火山图,条形图和小提琴图.
- 整合蛋白质域,预测结构 (AlphaFold),相互作用体,表达水平,疾病链接和PTM位点分析的分析模块.
- 将CURTAIN-PTM与激酶库连接起来,用于预测上游激酶.
主要成果:
- CURTAIN和CURTAIN-PTM为非专家提供了可访问的接口,以分析蛋白质组学数据.
- 这些工具可以实现火山地图的交互式探索,初级数据的解卷和准备发布的数据输出.
- 对帕金森病相关蛋白质 (PPM1H,LRRK2) 和无处不在数据集 (PINK1-Parkin) 的分析表明了工具的实用性.
- 从重新分析的数据集中揭示了新的生物学见解,包括以前未突出显示的数据.
结论:
- CURTAIN和CURTAIN-PTM显著降低了MS蛋白质组学数据分析和共享的障碍.
- 这些工具的开源性质促进了数据可访问性和协作研究.
- 倡导在出版物中包含可共享的CURTAIN网络链接,以提高数据的可复制性和利用性.
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