Jason van Rooyen, PhD eResearch Analyst www.eresearch.uct.ac.za
eResearch UCT Jason van Rooyen, PhD eResearch Analyst www.eresearch.uct.ac.za eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape http://www.canberra.edu.au/research/ucresearch/e-research eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape • eResearch is 21st century discovery through the application of advanced computing and IT • It is the transformation of research: Image courtesy of Dr. Govinda Poudel, with permission. eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Research Acceleration & Transformation KEY CHANGES IMPLICATIONS Pace and scale increasing • Technology is accelerating the pace and scale of research • Large-scale data requires more structured approach data management approach Storage, data management and tools New tools and methodologies • New and more powerful instruments • Digital recognition of text, speech and imagery • Crowdsourcing and citizen science Expert guidance on leveraging new approaches • Research funding is increasingly based on strong international collaborations • Internationalisation is introducing new complexities in health, ecology and economy (epidemics, climate change, Global Fin. Crisis) Swift capability to establish and support collaborations Internationalisation eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Transforming Research Methodologies Communicate Research Data Commons Collaborate Conventional microscope Virtual Lab Comprehend Cave Compute eResearch version of a microscope Collect HPC MRI eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Data Deluge: some perspective • 2 gigabytes = twenty metres of bookshelves • 2 terabytes = an entire academic research library • 2 petabytes = the contents of all US academic research libraries • 5 exabytes = all words ever spoken by human beings eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape www.skatelescope.org Data Deluge Data generation rates (post- capture processing) : Large facilities • Square Kilometer Array 0.3-1.5 EB / year • Large Hadron Collider 15 PB/ year • Direct electron detectors (equivalent to synchrotron beamlines) > 1 TB / day • Next Generation Sequencing platforms 4 TB/week/machine Laboratory based http://www.fei.com eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Data Storage and Management: PlyC • Unsuccessful structure solution of PlyC structure • But data stored in MyTardis, the Monash bioscieence research data repository http://www.quantumdiaries.org/ • New technological advancements in 2010 led to a solution of the PlyC structure from the data Monash’s Dr. Shena McGowan (under the direction of Prof. James Whisstock) eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Advancing comprehension and collaboration • A next generation hybrid 2D and 3D virtual reality environment for interrogating and sharing data Monash Cave2 Image courtesy Electronic Visualisation Laboratory & Dept of Psychiatry, UIC (Philip Chan) • Data sharing initiatives • Open data policies eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape “Scholarly practices across an astounding wide range of disciplines have become profoundly and irrevocably changed by the application of advanced information technology. This collection of new and emergent scholarly practices was first widely recognized in the science and engineering disciplines….humanities continue to showcase some of the most creative and transformative examples of the use of information technology to create new scholarship.” eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Supporting a more research-intensive UCT: New research strategy (2015-2025) • • • • • • • Resourcing research Supporting research Internationalising research Increasing the visibility of our research Enhancing interdisciplinary and transdisciplinary research (IDTD) Supporting engaged scholarship Bringing research into teaching Enhancing research outcomesthrough the use of information& communicationtechnology, data management and key partnerships eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape The history • eResearch at UCT began with ICTS executive director Sakkie Janse van Rensburg • His goal at UCT was to ensure researchers had the IT support they require to stay ahead of the game • UCT eResearch Centre established March 2014 • Joint initiative between the Office of the Deputy Vice Chancellor for Research and Internationalisation, Information and Communication Technology Services, the Libraries, the Research Office. eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape How? Create a world-class environment for 21st century discovery. eResearch UCT partners with research groups to accelerate and transform research, connecting them to the most appropriate hardware, software and services to sustain that capability Collect Compute Collaborate Communicate eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 Comprehend Customise University of Cape DVC-Research ICTS • Data Storage • Compute • Networks Research Office • Advocacy • Collaboration • Leadership • Governance • Strategy • Resourcing eResearch Centre The Library • Research visibility & discovery • Research data management Faculties • Various capabilities Researchers eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape As a partner and broker eResearch UCT will connect researchers with world-class expertise (local or external) and facilities in: • The collection and management of research data; • modeling, simulation and data processing through HPC • comprehension of big data through visualisation and data science techniques • dissemination of research outcomes (including data and workflows) • promotion of collaborative research through virtual labs and cloud resources; • development of customised research software, hardware and services. eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape a partner and broker eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Square Kilometre Array Data • One of the largest scientific projects ever undertaken to answer questions such as: • What is dark energy? • Was Einstein right about gravity? • Is there life elsewhere in the universe? Image: SKA Photo Library www.skatelescope.org • eResearch is supporting storage and compute • Exascale arriving soon… eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape CERN and Vidyo Conferencing • CERN is made up of a massive globally dispersed community of researchers • eResearch connected CERN collaborators with national providers to set up necessary software infrastructure required eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape High Performance Computing • Key research projects e.g. SKA and space geodesy • Use of HPC facilities have tripled in the past year • 300 researchers across campus assisted by HPC Image: Stephen Williams Photography • 33 citations (and counting) eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Facility Support: Olympus Virtual Microscope eResearch: • Worked with the CLS department to set up the servers and the database The old: slide boxes • Configured the system for various access scenarios including student, departmental and public access The new: Olympus VS120 Microscope eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Facility Support: Centre for Imaging and Analysis Provides the instrumental resources and expertise for structural analysis in all disciplines. Workflow: acquisition eResearch eResearch UCT processing interpretation Libraries Research Week Research Week 14 April 2015 14 April 2015 dissemination University of Cape Facility Support: Molecular and Cell Biology Tissue Culture Facility • Nikon fluorescent microscope for live cell imaging • eResearch supported storage, remote data analysis and collaboration eResearch eResearch UCT Clinical Research Centre • Clinical, laboratory and data management systems needed to pass an FDA or EMA audit. • Software and computational requirements met by eResearch Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Human Heredity and Health in Africa • First Pan African Bioinformatics Network in Africa: H3ABioNet & H3Africa Consortium • UCT eResearch Centre, in collaboration with Information and Communication Technology Services (ICTS) and the Computational Biology Group, will be developing a data storage archive solution • The data will include genomic data and access will be controlled according to internationally accepted standards. eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape Monash eResearch Centre • eResearch is 21st century research discovery through the application of advanced computing and IT • The UCT eResearch Centre partners with research groups to accelerate and transform research, connecting them to the most appropriate hardware, software and services to sustain that capability Collect Compute Collaborate Communicate Comprehend Customise The Team Anthony Beitz (Dir.) Timothy Carr Andrew Lewis Jason van Rooyen Heine de Jager Ashley Rustin Anthony Chris Mtshengu Natalie Simon eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape We look forward to hearing from you Email: [email protected] Website: www.eresearch.uct.ac.za eResearch eResearch UCT Libraries Research Week Research Week 14 April 2015 14 April 2015 University of Cape
© Copyright 2024