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. 2013 Sep;14(5):548-55.
doi: 10.1093/bib/bbt045. Epub 2013 Jun 21.

The NGS WikiBook: a dynamic collaborative online training effort with long-term sustainability

Jing-Woei Li  1 , Dan Bolser, Magnus Manske, Federico Manuel Giorgi, Nikolay Vyahhi, Björn Usadel, Bernardo J Clavijo, Ting-Fung Chan, Nathalie Wong, Daniel Zerbino, Maria Victoria Schneider
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The NGS WikiBook: a dynamic collaborative online training effort with long-term sustainability

Jing-Woei Li et al. Brief Bioinform. 2013 Sep.

Abstract

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.

Keywords: best practice; bioinformatics; collaborative learning; next-generation sequencing; training.

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