SCI-BUS Sílvia Delgado Olabarriaga e-BioScience Group Bioinformatics Laboratory Dept of Epidemiology, Biostatistics and Bioinformatics.

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Presentation transcript:

SCI-BUS Sílvia Delgado Olabarriaga e-BioScience Group Bioinformatics Laboratory Dept of Epidemiology, Biostatistics and Bioinformatics

Summary AMC AMC & grid e-Bioinfra Challenges Vision for SCI-BUS 2SCI-BUS pre-kick off, London, 6 June 2011

Academic Medical Center (AMC) patient care, fundamental and clinical scientific research, and teaching 26,000 patients/year; 7,000 employees; 1500 in research university hospital, faculty of medicine of UvA, Emma Children’s Hospital, many other Institutes and spin-offs SCI-BUS pre-kick off, London, 6 June

BioInformatics Laboratory Prof. Dr. Antoine van Kampen System Genomics, Semantic Biosystems, e-Bioscience SCI-BUS pre-kick off, London, 6 June

AMC & Grid 2005: Virtual Laboratory for e-Science project (VL-e) – Medical imaging – VLEMED VO 2008: e-Bioscience biolab – Research, design and evaluate e-science methodology for biomedical research SCI-BUS pre-kick off, London, 6 June 20115

e-Bioscience group SCI-BUS pre-kick off, London, 6 June eBioScience eBioImg eBioInfo Medical Imaging Medical Imaging Bioinformatics AMC IT Infra AMC IT Infra Computer Science SOULEY EVERT Paul Groot man y Michel de Vries many VACANCY

Vision: e-infrastructure for Bioscience research 7SCI-BUS pre-kick off, London, 6 June 2011 Researcher X Workstation Researcher X Workstation Researcher Z Workstation Researcher Z Workstation Researcher Y Workstation Researcher Y Workstation Researcher W Workstation Researcher W Workstation AMC network AMC Research Gateway (e-BioInfra Gateway) Cluster B Data Acquisition Equipment B Data Acquisition Equipment B Server B Storage Cluster A Data Acquisition Equipment A Data Acquisition Equipment A Server A Storage Cluster C Storage LS grid Cluster LS grid Cluster Grid Cluster Storage Cluster SS Storage Cluster C

Strategy 8 User front end e-bioinfra generic services Grid + local services Grid + local resources e-BioScience services Security Research, Collaboration, Software Development and Integration User Support SCI-BUS pre-kick off, London, 6 June 2011

Current e-BioInfra SCI-BUS pre-kick off, London, 6 June Technical, see PUCOWO 8 June, 9:30 User interfaces, see IWSG, June 9, 16:50

Challenges Design – Too many middleware options – From computing-centric to data centric – User interfaces Engineering – Changing interfaces and services – Incompatible/conflicting software stacks Operation and Support – “Not developed here” problem – Complexity (simplexity?) SCI-BUS pre-kick off, London, 6 June

Hope: SCI-BUS SCI-BUS pre-kick off, London, 6 June User front end e-bioinfra generic services Grid + local services Grid + local resources e-BioScience services Security

Goals in SCI-BUS Develop a scientific gateway for Neuroscience research – AMC & collaborators – Web-based collaboration platform – Data centric – Secure – Support for multiple DCIs Repeat for Next Generation Sequencing – Same/similar requirements? SCI-BUS pre-kick off, London, 6 June

Thanks! 13 The e-Bioscience research group currently operates with funding and support from various projects and organizations: BiGGrid project (Dutch Organisation for Scientific Research, NWO), SHIWA and SCI-BUS project (FP7 e-infrastructures), AMC ICT research innovation programme, COMMIT project (Agentschap NL).

e-BioInfra IWSG-Life

Web Application: System Components PUCOWO

Workflow Service IWSG-Life

GridSync IWSG-Life