一种新型的由社区驱动的用于细胞外囊泡数据功能富集分析的软件。
A novel community driven software for functional enrichment analysis of extracellular vesicles data.
作者信息
Pathan Mohashin, Keerthikumar Shivakumar, Chisanga David, Alessandro Riccardo, Ang Ching-Seng, Askenase Philip, Batagov Arsen O, Benito-Martin Alberto, Camussi Giovanni, Clayton Aled, Collino Federica, Di Vizio Dolores, Falcon-Perez Juan Manuel, Fonseca Pedro, Fonseka Pamali, Fontana Simona, Gho Yong Song, Hendrix An, Hoen Esther Nolte-'t, Iraci Nunzio, Kastaniegaard Kenneth, Kislinger Thomas, Kowal Joanna, Kurochkin Igor V, Leonardi Tommaso, Liang Yaxuan, Llorente Alicia, Lunavat Taral R, Maji Sayantan, Monteleone Francesca, Øverbye Anders, Panaretakis Theocharis, Patel Tushar, Peinado Héctor, Pluchino Stefano, Principe Simona, Ronquist Goran, Royo Felix, Sahoo Susmita, Spinelli Cristiana, Stensballe Allan, Théry Clotilde, van Herwijnen Martijn J C, Wauben Marca, Welton Joanne L, Zhao Kening, Mathivanan Suresh
机构信息
Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne, Australia.
Department of Computer Science and Information Technology, La Trobe University, Melbourne, Australia.
出版信息
J Extracell Vesicles. 2017 May 26;6(1):1321455. doi: 10.1080/20013078.2017.1321455. eCollection 2017.
Bioinformatics tools are imperative for the in depth analysis of heterogeneous high-throughput data. Most of the software tools are developed by specific laboratories or groups or companies wherein they are designed to perform the required analysis for the group. However, such software tools may fail to capture "what the community needs in a tool". Here, we describe a novel community-driven approach to build a comprehensive functional enrichment analysis tool. Using the existing FunRich tool as a template, we invited researchers to request additional features and/or changes. Remarkably, with the enthusiastic participation of the community, we were able to implement 90% of the requested features. FunRich enables plugin for extracellular vesicles wherein users can download and analyse data from Vesiclepedia database. By involving researchers early through community needs software development, we believe that comprehensive analysis tools can be developed in various scientific disciplines.
生物信息学工具对于深入分析异质高通量数据至关重要。大多数软件工具是由特定实验室、团队或公司开发的，这些工具旨在为该团队执行所需的分析。然而，此类软件工具可能无法满足“社区对工具的需求”。在此，我们描述一种新颖的社区驱动方法，用于构建一个全面的功能富集分析工具。以现有的FunRich工具为模板，我们邀请研究人员提出额外的功能和/或更改请求。值得注意的是，在社区的热情参与下，我们能够实现90%的请求功能。FunRich支持细胞外囊泡插件，用户可以从Vesiclepedia数据库下载和分析数据。通过早期让研究人员参与基于社区需求的软件开发，我们相信可以在各个科学学科中开发出全面的分析工具。
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