Noël Vincent, Ruscone Marco, Stoll Gautier, Viara Eric, Zinovyev Andrei, Barillot Emmanuel, Calzone Laurence
Institut Curie, PSL Research University, Paris, France.
INSERM, U900, Paris, France.
Front Mol Biosci. 2021 Nov 15;8:754444. doi: 10.3389/fmolb.2021.754444. eCollection 2021.
WebMaBoSS is an easy-to-use web interface for conversion, storage, simulation and analysis of Boolean models that allows to get insight from these models without any specific knowledge of modeling or coding. It relies on an existing software, MaBoSS, which simulates Boolean models using a stochastic approach: it applies continuous time Markov processes over the Boolean network. It was initially built to fill the gap between Boolean and continuous formalisms, i.e., providing semi-quantitative results using a simple representation with a minimum number of parameters to fit. The goal of WebMaBoSS is to simplify the use and the analysis of Boolean models coping with two main issues: 1) the simulation of Boolean models of intracellular processes with MaBoSS, or any modeling tool, may appear as non-intuitive for non-experts; 2) the simulation of already-published models available in current model databases (e.g., Cell Collective, BioModels) may require some extra steps to ensure compatibility with modeling tools such as MaBoSS. With WebMaBoSS, new models can be created or imported directly from existing databases. They can then be simulated, modified and stored in personal folders. Model simulations are performed easily, results visualized interactively, and figures can be exported in a preferred format. Extensive model analyses such as mutant screening or parameter sensitivity can also be performed. For all these tasks, results are stored and can be subsequently filtered to look for specific outputs. This web interface can be accessed at the address: https://maboss.curie.fr/webmaboss/ and deployed locally using docker. This application is open-source under LGPL license, and available at https://github.com/sysbio-curie/WebMaBoSS.
WebMaBoSS是一个易于使用的网络界面，用于布尔模型的转换、存储、模拟和分析，无需任何建模或编码的专业知识就能深入了解这些模型。它依赖于现有的软件MaBoSS，该软件使用随机方法模拟布尔模型：它在布尔网络上应用连续时间马尔可夫过程。它最初的构建目的是填补布尔形式主义和连续形式主义之间的空白，即使用具有最少参数拟合的简单表示来提供半定量结果。WebMaBoSS的目标是简化布尔模型的使用和分析，解决两个主要问题：1）对于非专家来说，使用MaBoSS或任何建模工具模拟细胞内过程的布尔模型可能看起来不直观；2）模拟当前模型数据库（如Cell Collective、BioModels）中已发表的模型可能需要一些额外步骤以确保与MaBoSS等建模工具兼容。使用WebMaBoSS，可以直接从现有数据库创建或导入新模型。然后可以对它们进行模拟、修改并存储在个人文件夹中。模型模拟易于执行，结果可交互式可视化，并且可以以首选格式导出图形。还可以进行广泛的模型分析，如突变筛选或参数敏感性分析。对于所有这些任务，结果都会存储，随后可以进行过滤以查找特定输出。可以通过以下地址访问此网络界面：https://maboss.curie.fr/webmaboss/ ，并使用docker在本地部署。此应用程序在LGPL许可下开源，可在https://github.com/sysbio-curie/WebMaBoSS上获取。
