The NGS WikiBook: a dynamic collaborative online training effort with long-term sustainability
The NGS WikiBook: a dynamic collaborative online training effort with long-term sustainability
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DOI：
10.1093/bib/bbt045
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发表时间：
2013-09-01
影响因子：
9.5
通讯作者：
Schneider, Maria Victoria
中科院分区：
文献类型：
--
作者：
Li, Jing-Woei;Bolser, Dan;Schneider, Maria Victoria
下一代测序（NGS）越来越多地被采用作为生物医学研究的支柱。随着各种经济实惠的台式测序仪的商业化，越来越多的细胞和分子生物学家将实现NGS，这需要社区对生物信息学协议达成共识，以解决序列数据数量的指数增长。目前用于NGS信息学的资源极为分散。找到一个集中的合成是困难的。有许多工具可用于NGS数据分析;然而，没有一个能满足所有可能的用途和需求。这种功能上的差距可以通过在定制的管道中整合不同的方法来填补，这种方法得益于许多NGS程序的开源性质。从社区精神和维基百科框架的使用，我们已经启动了一个合作的NGS资源：NGS WikiBook。我们收集了足够数量的文本，以鼓励更广泛的社区为它做出贡献。用户可以搜索，浏览，编辑和创建新内容，以促进自我学习和反馈社区。这种动态材料的整体结构和风格是为生物学家和非生物信息学家设计的。在线材料的灵活性允许读者在第一次阅读时忽略细节，但可以立即访问他们需要的信息。每一章都附有实际练习，以便读者熟悉每一步。NGS WikiBook旨在创建一个集体实验室书籍和协议，解释这个快速发展的领域的关键概念并描述最佳实践。
Next-generation sequencing (NGS) is increasingly being adopted as the backbone of biomedical research. With the commercialization of various affordable desktop sequencers, NGS will be reached by increasing numbers of cellular and molecular biologists, necessitating community consensus on bioinformatics protocols to tackle the exponential increase in quantity of sequence data. The current resources for NGS informatics are extremely fragmented. Finding a centralized synthesis is difficult. A multitude of tools exist for NGS data analysis; however, none of these satisfies all possible uses and needs. This gap in functionality could be filled by integrating different methods in customized pipelines, an approach helped by the open-source nature of many NGS programmes. Drawing from community spirit and with the use of the Wikipedia framework, we have initiated a collaborative NGS resource: The NGS WikiBook. We have collected a sufficient amount of text to incentivize a broader community to contribute to it. Users can search, browse, edit and create new content, so as to facilitate self-learning and feedback to the community. The overall structure and style for this dynamic material is designed for the bench biologists and non-bioinformaticians. The flexibility of online material allows the readers to ignore details in a first read, yet have immediate access to the information they need. Each chapter comes with practical exercises so readers may familiarize themselves with each step. The NGS WikiBook aims to create a collective laboratory book and protocol that explains the key concepts and describes best practices in this fast-evolving field.