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    Next-generation sequencing: a challenge to meet the increasing demand for training workshops in Australia.

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    13
    Author
    Watson-Haigh, NS; Shang, CA; Haimel, M; Kostadima, M; Loos, R; Deshpande, N; Duesing, K; Li, X; McGrath, A; McWilliam, S; ...
    Date
    2013-09
    Source Title
    Briefings in Bioinformatics
    Publisher
    Oxford Univ Press
    University of Melbourne Author/s
    Schneider, Maria Victoria
    Affiliation
    Medicine Dentistry & Health Sciences
    Metadata
    Show full item record
    Document Type
    Journal Article
    Citations
    Watson-Haigh, N. S., Shang, C. A., Haimel, M., Kostadima, M., Loos, R., Deshpande, N., Duesing, K., Li, X., McGrath, A., McWilliam, S., Michnowicz, S., Moolhuijzen, P., Quenette, S., Revote, J. N. D. L., Tyagi, S. & Schneider, M. V. (2013). Next-generation sequencing: a challenge to meet the increasing demand for training workshops in Australia.. Brief Bioinform, 14 (5), pp.563-574. https://doi.org/10.1093/bib/bbt022.
    Access Status
    Open Access
    URI
    http://hdl.handle.net/11343/260382
    DOI
    10.1093/bib/bbt022
    Open Access at PMC
    http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3771231
    Abstract
    The widespread adoption of high-throughput next-generation sequencing (NGS) technology among the Australian life science research community is highlighting an urgent need to up-skill biologists in tools required for handling and analysing their NGS data. There is currently a shortage of cutting-edge bioinformatics training courses in Australia as a consequence of a scarcity of skilled trainers with time and funding to develop and deliver training courses. To address this, a consortium of Australian research organizations, including Bioplatforms Australia, the Commonwealth Scientific and Industrial Research Organisation and the Australian Bioinformatics Network, have been collaborating with EMBL-EBI training team. A group of Australian bioinformaticians attended the train-the-trainer workshop to improve training skills in developing and delivering bioinformatics workshop curriculum. A 2-day NGS workshop was jointly developed to provide hands-on knowledge and understanding of typical NGS data analysis workflows. The road show-style workshop was successfully delivered at five geographically distant venues in Australia using the newly established Australian NeCTAR Research Cloud. We highlight the challenges we had to overcome at different stages from design to delivery, including the establishment of an Australian bioinformatics training network and the computing infrastructure and resource development. A virtual machine image, workshop materials and scripts for configuring a machine with workshop contents have all been made available under a Creative Commons Attribution 3.0 Unported License. This means participants continue to have convenient access to an environment they had become familiar and bioinformatics trainers are able to access and reuse these resources.

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