Moteur de recherche d’entreprises européennes
UK funding (703 146 £) : Cloud-SPAN : Analyses spécialisées pour les « omiques » environnementales avec le calcul haute performance basé sur le cloud Ukri01/04/2021 UK Research and Innovation, Royaume Uni
Vue d’ensemble
Texte
Cloud-SPAN : Analyses spécialisées pour les « omiques » environnementales avec le calcul haute performance basé sur le cloud
| Abstract | Environmental Biotechnology (EB) addresses global challenges using engineered microbial systems for environmental protection, bio-remediation and resource recovery. It is a critical and expanding area for the UK and underpins some of the world's most important industries. This is acknowledged by the funding invested in the creation of BBSRC's Networks in Industrial Biotechnology and Bioenergy (NIBBs). A deep mechanistic understanding of the complex microbial communities involved in the biological cycling of global resources is essential to meet global challenges such as Net Zero, waste management and increased demand. The complexity of these microbiomes can be orders of magnitude larger than those found in the human gut, requiring different approaches to experimental design and analysis with High Performance Computing (HPC). However, EB is an interdisciplinary field that attracts researchers from a broad range of disciplines including Mathematics, Engineering, Biology, Social Sciences, Management, Physics and Chemistry and big data 'omics analyses on HPC systems are often not core skills for such researchers. This proposal aims to develop and deliver highly accessible resources that will upskill these interdisciplinary researchers so that they are able to generate and analyze big data relating to EB using Cloud HPC. Although infrastructure and resources exist for microbial 'omics (e.g. JGI's IMG/M, MG-RAST, Galaxy, CLIMB, EBI) there is a lack of systematic training tightly linked to the EB domain and documentation is often focussed on technical proficiency rather than contextualised with a strong understanding of experimental design. We will provide foundational training and develop and deliver new advanced modules covering the specialised skills required to generate and analyse 'omics data using Cloud HPC resources. These will include experimental design and statistical modules to ensure researchers can generate data appropriate to investigate their research question. Modules will deploy cloud-based containerised instances provided by Google Education and Amazon Web Services (AWS) for exemplar workflows free to the learner. They will form a complete training resource with fully articulated prerequisites and learning objectives that can be used for in-person or online tutor-led workshops or self-paced learning. Our proposal offers structured Learning Paths from the statistical skills required for robust experimental design through to the reproducible execution and interpretation of 'omics analyses with HPC to cater to researchers with differing levels of previous experience and which allow self-assessment of training needs. We also provide Diversity Scholarships to enable members of underrepresented groups to participate in online or in-person training. The collaboration between the University of York and the Software Sustainability Institute (SSI) brings together excellence in data science pedagogy and environmental 'omics research with the SSI's UK-leading expertise in research computing and community building. This will ensure the training developed genuinely complements, and aligns with, existing materials to enhance national provision. Sustainability will be fostered by making the resources Findable, Accessible, Interoperable and Reusable (FAIR), providing cross-platform images for deployment and by developing and proactively engaging with a Community of Practice and providing Code Retreats for the supported practice of methods to participants' own data. In addition, "Cloud Administration Guides" will be developed for institutional HPC Teams to run specialised modules with their own resources. These Guides will be supported 1-to-2 day training by Cloud-SPAN systems administrators. The project will be promoted by our partners, the SSI, Google Education, AWSand the N8 Centre of Excellence in Computationally Intensive Research and through delivery of conference talks and seminars. |
| Category | Research Grant |
| Reference | MR/V038680/1 |
| Status | Closed |
| Funded period start | 01/04/2021 |
| Funded period end | 30/06/2024 |
| Funded value | £703 146,00 |
| Source | https://gtr.ukri.org/projects?ref=MR%2FV038680%2F1 |
Participating Organisations
| University of York | |
| The Carpentries | |
| White Rose University Consortium | |
| Software Sustainability Institute | |
| UK Environmental Biotechnology Network |
Cette annonce se réfère à une date antérieure et ne reflète pas nécessairement l’état actuel. L’état actuel est présenté à la page suivante : University of York Chaplaincy Centre, York, Royaume Uni.
Les visualisations de "University of York - UK funding (703 146 £) : Cloud-SPAN : Analyses spécialisées pour les « omiques » environnementales avec le calcul haute performance basé sur le cloud"
sont mis à disposition par
North Data
et peuvent être réutilisées selon les termes de la licence
Creative Commons CC-BY.
