让蛋白质组学变得触手可及:用于交互式分析磷酸蛋白组数据的 RokaiXplorer。

IF 2.4 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Bioinformatics advances Pub Date : 2024-06-20 eCollection Date: 2024-01-01 DOI:10.1093/bioadv/vbae077
Serhan Yılmaz, Filipa Blasco Tavares Pereira Lopes, Daniela Schlatzer, Marzieh Ayati, Mark R Chance, Mehmet Koyutürk
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引用次数: 0

摘要

摘要:我们介绍的 RokaiXplorer 是一种直观的网络工具,旨在解决蛋白质组学和磷酸化蛋白质组学数据分析和可视化方面缺乏用户友好型解决方案的问题。RokaiXplorer 通过交互式在线界面简化了数据处理、分析和可视化过程,使没有接受过蛋白质组学或数据科学专业培训的研究人员也能使用。RokaiXplorer 拥有一套全面的模块,有助于在磷酸位点、蛋白质、激酶、生物过程和通路水平上进行磷酸蛋白组学分析。该工具提供的功能包括数据归一化、统计测试、活性推断、通路富集、亚组分析、自动报告生成和多种可视化,包括火山图、柱状图、热图和网络视图。作为一项独特功能,RokaiXplorer 允许研究人员毫不费力地部署自己的数据浏览器,从而实现研究数据和结果的互动共享。总之,RokaiXplorer 通过在单个应用程序中提供多层次综合数据分析能力,填补了磷酸蛋白组数据分析领域的重要空白:访问 RokaiXplorer:http://explorer.rokai.io。
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Making proteomics accessible: RokaiXplorer for interactive analysis of phospho-proteomic data.

Summary: We present RokaiXplorer, an intuitive web tool designed to address the scarcity of user-friendly solutions for proteomics and phospho-proteomics data analysis and visualization. RokaiXplorer streamlines data processing, analysis, and visualization through an interactive online interface, making it accessible to researchers without specialized training in proteomics or data science. With its comprehensive suite of modules, RokaiXplorer facilitates phospho-proteomic analysis at the level of phosphosites, proteins, kinases, biological processes, and pathways. The tool offers functionalities such as data normalization, statistical testing, activity inference, pathway enrichment, subgroup analysis, automated report generation, and multiple visualizations, including volcano plots, bar plots, heat maps, and network views. As a unique feature, RokaiXplorer allows researchers to effortlessly deploy their own data browsers, enabling interactive sharing of research data and findings. Overall, RokaiXplorer fills an important gap in phospho-proteomic data analysis by providing the ability to comprehensively analyze data at multiple levels within a single application.

Availability and implementation: Access RokaiXplorer at: http://explorer.rokai.io.

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