Next-generation sequencing: a challenge to meet the increasing demand for training workshops in Australia
Next-generation sequencing: a challenge to meet the increasing demand for training workshops in Australia
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DOI：
10.1093/bib/bbt022
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发表时间：
2013-09-01
影响因子：
9.5
通讯作者：
Schneider, Maria V.
中科院分区：
文献类型：
--
作者：
Watson-Haigh, Nathan S.;Shang, Catherine A.;Schneider, Maria V.
澳大利亚生命科学研究界广泛采用高通量下一代测序（NGS）技术，凸显了迫切需要提高生物学家处理和分析NGS数据所需工具的技能。由于缺乏有时间和资金来开发和提供培训课程的熟练培训人员，澳大利亚目前缺乏尖端的生物信息学培训课程。为了解决这一问题，澳大利亚研究组织联盟，包括澳大利亚生物平台，英联邦科学和工业研究组织和澳大利亚生物信息学网络，一直在与EMBL-EBI培训小组合作。一批澳大利亚生物信息学家参加了培训员培训讲习班，以提高制定和提供生物信息学讲习班课程的培训技能。为期两天的NGS研讨会是共同开发的，旨在提供对典型NGS数据分析工作流程的实践知识和理解。路演式研讨会在澳大利亚五个地理位置遥远的地点成功举办，使用了新建立的澳大利亚NeCTAR研究云。我们强调了我们在从设计到交付的不同阶段必须克服的挑战，包括建立澳大利亚生物信息学培训网络以及计算基础设施和资源开发。虚拟机映像、研讨会材料和用于配置具有研讨会内容的机器的脚本都已在知识共享署名3.0未移植许可证下提供。这意味着参与者可以继续方便地访问他们已经熟悉的环境，生物信息学培训人员能够访问和重复使用这些资源。
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.