TY - JOUR
T1 - Next-generation sequencing
T2 - a challenge to meet the increasing demand for training workshops in Australia.
AU - Watson-Haigh, Nathan S
AU - Shang, Catherine A
AU - Haimel, Matthias
AU - Kostadima, Myrto
AU - Loos, Remco
AU - Deshpande, Nandan
AU - Duesing, Konsta
AU - Li, Xi
AU - McGrath, Annette
AU - McWilliam, Sean
AU - Michnowicz, Simon
AU - Moolhuijzen, Paula
AU - Quenette, Stevan Michael
AU - Revote, Jerico
AU - Tyagi, Sonika
AU - Schneider, Maria Victoria
PY - 2013
Y1 - 2013
N2 - 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 NGSworkshop 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.
AB - 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 NGSworkshop 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.
UR - http://bib.oxfordjournals.org/content/14/5/563.full.pdf+html
U2 - 10.1093/bib/bbt022
DO - 10.1093/bib/bbt022
M3 - Article
C2 - 23543352
VL - 14
SP - 563
EP - 574
JO - Briefings in Bioinformatics
JF - Briefings in Bioinformatics
SN - 1477-4054
IS - 5
ER -