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Geoscience Collaboration and the Geosciences Network (GEON)

Geoscience Collaboration and the Geosciences Network (GEON). Sponsored by: GEON: The Geosciences Network The National Science Foundation (USA) BeSTGrid, New Zealand School of Geography, Geology and Environmental Science, U. Auckland. Day 1: e-Science Collaboration.

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Geoscience Collaboration and the Geosciences Network (GEON)

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  1. e-science, Auckland GEON Workshop, 2007

  2. Geoscience Collaboration and the Geosciences Network (GEON) Sponsored by: GEON: The Geosciences Network The National Science Foundation (USA) BeSTGrid, New Zealand School of Geography, Geology and Environmental Science, U. Auckland

  3. Day 1: e-Science Collaboration 09:40 : General Introduction to the workshop and e-science : Mark Gahegan 10:15 : Cyberinfrastructure and e-science at the San Diego Supercomputer Center : Chaitan Baru 11:00 : Coffee break 11:30 : AuScope - An overview & future plans : Rob Woodcock 12:00 : The NZ Geospatial scene - Government Geospatial Office perspective : Brendon Whiteman 12:30 : Lunch 13:30 : An overview of BeSTGRID : Tim Chaffe 13:45 : An overview of SCENZ-GRID : Robert Gibb 14:00 : Challenges for collaboration : panel discussion with Chaitan Baru, Mark Gahegan, Rob Woodcock, Robert Gibb 14:45 : Discussion forum on collaboration & breakout groups 15:30 : Coffee 16:00 : Summaries presented 16:30 : Adjourn for welcome drinks from School of Geography, Geology and Environmental Science e-science, Auckland GEON Workshop, 2007

  4. Day 2: GEON 09:00 : Coffee & mingling 09:30 : Introduction to GEON and i-GEON : Chaitan Baru 10:00 : Geoscience needs and challenges : Dogan Seber 10:30 : Knowledge-based data integration (+web portal demo?) : GEON Team 11:00 : Coffee 11:30 : Geon Architecture, Systems & Development : Sandeep Chandra 12:30 : Lunch 13:30 : Presentations by local researchers • Peter Leary Institute of Earth Science Engineering, University of Auckland • David Park Geospatial Research Centre • Robert Gibb and Paul Grimwood Landcare Research and GNS 15:30 : Coffee & mingling, adjourn when finished e-science, Auckland GEON Workshop, 2007

  5. Day 3: More GEON 09:00 : Coffee & mingling 09:30 : Science applications of GEON : Dogan Seber • Synthetic Seismogram • Lidar Workflows • PaleoIntegration 10:15 : Capturing, representing and sharing meaning : Mark Gahegan 11:00 : Coffee Break 11:30 : Exploration, discussion and confirmation of specific strategies for follow-up and collaboration. Themes may include • Emerging e-science and e-education • Geoscience standards • Workflow, analysis and visualization tools Formal close of workshop just before lunch 12:30 : Lunch 13:30 : Informal discussions and meetings (with each other, with the GEON team) e-science, Auckland GEON Workshop, 2007

  6. e-Science: Collaborative science, enabled by computational systems Mark Gahegan Professor of Geography, Affiliate Professor of Information Science and Technology GeoVISTA Center, Department of Geography The Pennsylvania State University, USA

  7. e-Science (from Wikipedia) The term e-Science (or eScience) is used to describe computationally intensive science that is carried out in highly distributed network environments, or science that uses immense data sets that require specialized (grid) computing; …the term sometimes includes technologies that enable distributed collaboration, such as the Access Grid Examples of e-Science include: • social simulations, • particle physics, • earth sciences and • bio-informatics. e-science, Auckland GEON Workshop, 2007

  8. Goals of e-Science • Helping communities of researchers and educators to do better science by sharing their resources: • data, tools, models, protocols, results • Making specialized and expensive equipment and computers available to distributed users • Providing fast networks and distributed data stores for data intensive computing • Litmus tests: • Contributing to e-Science becomes an integral part of the way scientists/educators work • The ‘three pillars of science’: communication, repeatability, refutability • Can we ourselves remember what we did? Will future generations of scientists be able to follow our work? e-science, Auckland GEON Workshop, 2007

  9. Four sample e-science projects The Fungal Plant Pathogen Database http://fppd.cbio.psu.edu/index.html Human Environment Regional Observatories (HERO): www.hero.psu.edu Learning Activities in Digital Libraries: www.dialogplus.org ArchaeoInformatics: http://archaeoinformatics.org/index.html e-science, Auckland GEON Workshop, 2007

  10. Fungal Plant Pathogen Database Genetic sequencing, comparing and tracking different pathogen strains

  11. e-science, Auckland GEON Workshop, 2007

  12. A cyber-infrastructure for plant pathogen research: Motivations • Plant pathogen culture collections are essential resources in our fight against plant disease • Yet available infrastructure in support of culture collections is in serious need of improvement, and we continually face the risk of losing many of these collections due to the lack of support. • Genetic sequencing and alignment is computationally intensive • Need for timely identification and monitoring of novel and reemerging plant pathogens that threaten agriculture • Archiving is essential for rapid assessment of potential risk and can help track the change and movement of pathogens. e-science, Auckland GEON Workshop, 2007

  13. Plant pathogen application examples e-science, Auckland GEON Workshop, 2007

  14. part of a phylogenetic tree representing sequences from the Actin marker of the fungal species Lettuce Drop (Sclerotinia sclerotiorum) 0.084 0.113 0.027 0.085 0.143 0.118 0.117 0.004 0.120 0.015 0.001 0.002 0.012 4 3 6 5 7 n = 1 W. Canada 8 n = 1 Norway 2 1 n = 1 Norway n = 7 SE, USA N. Zealand n = 2 E. Canada n = 5 SE, USA N. Zealand n = 69 SE, USA NE, USA W. Canada Norway N.Zealand n = 2 Norway e-science, Auckland GEON Workshop, 2007

  15. GeoGenetics: Geographical mapping of isolates A linked map and taxonomic tool (called Taxa, from Napier U. Scotland). Users can study how far apart in the genetic tree different isolates are and how far apart they are geographically. e-science, Auckland GEON Workshop, 2007

  16. 0.084 0.113 0.027 0.085 0.143 0.118 0.117 0.004 0.120 0.015 0.001 0.002 0.012 4 3 6 5 7 n = 1 W. Canada 8 n = 1 Norway 2 1 n = 1 Norway n = 7 SE, USA N. Zealand n = 2 E. Canada n = 5 SE, USA N. Zealand n = 69 SE, USA NE, USA W. Canada Norway N.Zealand n = 2 Norway Isolates related to regional climate of their geographical location • Climate graph: Isolates are grouped according to region: • New Zealand (pink squares), • SE United States (green triangles), • NE United States (red circle), • Norway (purple asterisks), • W Canada (blue diamonds). e-science, Auckland GEON Workshop, 2007

  17. Human-Environment Regional Observatories Likely impacts of global climate change on local places

  18. e-science, Auckland GEON Workshop, 2007

  19. Facilitating the development of aclimate change vulnerability index e-science, Auckland GEON Workshop, 2007

  20. HERO Concept emergence (day 1…) e-science, Auckland GEON Workshop, 2007

  21. (…day 7…) e-science, Auckland GEON Workshop, 2007

  22. (…day 28) e-science, Auckland GEON Workshop, 2007

  23. Researcher convergence??? Day 1 Day 28 e-science, Auckland GEON Workshop, 2007

  24. Semantic distance between participants e-science, Auckland GEON Workshop, 2007

  25. DialogPLUS: e-Science meets e-Education Sharing learning activities between institutions

  26. e-science, Auckland GEON Workshop, 2007

  27. e-science, Auckland GEON Workshop, 2007

  28. e-science, Auckland GEON Workshop, 2007

  29. e-science, Auckland GEON Workshop, 2007

  30. …Semantic metadata describes content and pedagogy Chris Bailey (Soton, UK): DialogPLUS e-science, Auckland GEON Workshop, 2007

  31. Learning Activity Designing a learning activity: connecting pedagogy, domain concepts and resources Learning Approach Subject (GPS) Outcomes Interactions Tasks e-science, Auckland GEON Workshop, 2007

  32. e-science, Auckland GEON Workshop, 2007

  33. e-science, Auckland GEON Workshop, 2007

  34. ArchaeoInformatics Working with the archaeological community

  35. e-science, Auckland GEON Workshop, 2007

  36. New project—funded by the Mellon Foundation e-science, Auckland GEON Workshop, 2007

  37. Need for data integration Need for search / query tools Mapping, GIS, visualization Large-scale simulations & shared computing? Data must be remain at local sites Obfuscating sensitive data Custodianship is contested No data standards and controlled vocabularies Is archaeology different? e-science, Auckland GEON Workshop, 2007

  38. SUMMARY: Added value for e-science researchers • Access to remote equipment, computing power and in-silico experiments • Collaborative tools & workspaces • Access to large collections of data & results (international?) • Integration & translation of data between formats • Curation of data into the long term • How is the effort sustained? • More efficient science? e-science, Auckland GEON Workshop, 2007

  39. Many challenges • Technical… • Conceptual… • Sociological…What needs to change? • Ongoing funding for e-Science? • Participation and adoption by science communities (risk, resistance)? • Recognition that contributing to e-Science is a valid and worthwhile outcome (just like publishing papers)? e-science, Auckland GEON Workshop, 2007

  40. End Questions?

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