A framework for representing, manipulating and reasoning with geographic semantics

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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

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Day 1 e-Science Collaboration

• 0940  General Introduction to the workshop and
  e-science  Mark Gahegan
• 1015  Cyberinfrastructure and e-science at the
  San Diego Supercomputer Center  Chaitan Baru
• 1100  Coffee break
• 1130  AuScope - An overview future plans 
  Rob Woodcock
• 1200  The NZ Geospatial scene - Government
  Geospatial Office perspective  Brendon Whiteman
• 1230  Lunch
• 1330  An overview of BeSTGRID  Tim Chaffe
• 1345  An overview of SCENZ-GRID  Robert Gibb
• 1400  Challenges for collaboration  panel
  discussion with Chaitan Baru, Mark Gahegan, Rob
  Woodcock, Robert Gibb
• 1445  Discussion forum on collaboration
  breakout groups
• 1530  Coffee
• 1600  Summaries presented
• 1630  Adjourn for welcome drinks from School of
  Geography, Geology and Environmental Science

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Day 2 GEON

• 0900  Coffee mingling
• 0930  Introduction to GEON and i-GEON  Chaitan
  Baru
• 1000  Geoscience needs and challenges  Dogan
  Seber
• 1030  Knowledge-based data integration (web
  portal demo?)  GEON Team
• 1100  Coffee
• 1130  Geon Architecture, Systems
  Development  Sandeep Chandra
• 1230  Lunch
• 1330  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
• 1530  Coffee mingling, adjourn when finished

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Day 3 More GEON

• 0900  Coffee mingling
• 0930  Science applications of GEON  Dogan
  Seber
• Synthetic Seismogram
• Lidar Workflows
• PaleoIntegration
• 1015  Capturing, representing and sharing
  meaning  Mark Gahegan
• 1100  Coffee Break
• 1130  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
• 1230  Lunch
• 1330  Informal discussions and meetings (with
  each other, with the GEON team)

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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

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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.

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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?

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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
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Fungal Plant Pathogen Database

• Genetic sequencing, comparing and tracking
  different pathogen strains

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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.

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Plant pathogen application examples
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part of a phylogenetic tree representing
sequences from the Actin marker of the fungal
species Lettuce Drop (Sclerotinia sclerotiorum)
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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.
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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).
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Human-Environment Regional Observatories

• Likely impacts of global climate change on local
  places

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Facilitating the development of aclimate change
vulnerability index
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HERO Concept emergence (day 1)
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(day 7)
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(day 28)
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Researcher convergence???
Day 1
Day 28
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Semantic distance between participants
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DialogPLUS e-Science meets e-Education

• Sharing learning activities between institutions

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Semantic metadata describes content and pedagogy
Chris Bailey (Soton, UK) DialogPLUS
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Designing a learning activity connecting
pedagogy, domain concepts and resources
Learning Approach
Subject (GPS)
Outcomes
Interactions
Tasks
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ArchaeoInformatics

• Working with the archaeological community

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New projectfunded by the Mellon Foundation
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Is archaeology different?

• 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

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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?

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Many challenges

• Technical
• Conceptual
• SociologicalWhat 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)?

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End

• Questions?