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http://knb.ecoinformatics.org http://seek.ecoinformatics.org
SEEK: Enabling Ecology and Biodiversity Science Through Cyberinfrastructure
Info
rmat
ion
Co
nte
nt
Time
Time of publication
Specific details
General details
Accident
Retirement or career change
Death
(Michener et al. 1997)
Data Entropy
What Users Really Want…
Contaminant TransportEcosystems, Biocomplexity
Marine Microorganisms Seismic Structure Response
SEEK Overview
Morpho
SEEK
Science Environment for Ecological Knowledge
EcoGrid Access to environmental data
Analysis and Modeling System Modeling scientific workflows
Semantic Mediation System “Smart” data discovery and integration
Knowledge Representation Classification and Nomenclature Biodiversity and Ecological Analysis and Modeling
Lotka-Volterra Predator Prey Model
SEEK EcoGrid
Integrate diverse data networks from ecology, biodiversity, and environmental sciences
Grid-standardized interfaces
Metadata-mediated data access (EML)
Computational access Pre-defined analytical services On-the-fly analytical services
EcoGrid client interactions
Modes of interaction Client-server Fully distributed Peer-to-peer
EcoGrid Registry Node discovery Service discovery
Aggregation services Centralized access Reliability Data preservation
Label data with semantic types Label inputs and outputs of analytical components with
semantic types
Use reasoning engines to generate transformation steps Beware analytical constraints
Use reasoning engine to discover relevant components
Semantic Mediation
Data Ontology Workflow Components
Ecological ontologies
What was measured (e.g., biomass) Type of measurement (e.g., energy) Context of measurement (e.g., Psychotria
limonensis) How it was measured (e.g., dry weight)
Growl Ontology Viewer Showing the Measurements Ontology
Geographic Space Ecological Space
occurrence points on native distribution
ecological niche modeling
Projection back onto geography
Native range prediction
Invaded range prediction
The SEEK Prototype: Ecological Niche Modeling
temperature
Model of niche in ecological dimensions
pre
cip
itatio
n
Biodiversity information … e.g., data from
museum specimens
Geospatial and remotely sensed
data
Results taken to integration with
other data realms (e.g., human populations, public health,
etc.)
Species prediction map
PredictedDistribution:Amur snakehead(Channa argus)
Image from http://www.lifemapper.org
Future Scenarios
Future scenarios based on general circulation models (GCMs) present diverse visions of global climate futures. The implications of these different futures for biodiversity are only now being explored…
SEEK/Kepler Mammal-CC Project
Build pipelines for automated processing of CC/biodiversity analyses
Prototype application to mammals of Western Hemisphere
15-20 GCM scenarios,including all IPCC scenarios
2 major evolutionary-computingalgorithms (GA and NN)
2-3 dispersal scenarios
• 2000-3000 species• 2 algorithms• 100+ models/species/algorithm• 500,000 – 1,000,000 models• Test large-scale implementation of Kepler• Provide a hemisphere-wide view of mammal diversity• Provide a massive comparison of CC implications as function of
• region• clade• scenario
•Enable many other parallel apps
Networking
Biomedical Informatics Research NetworkCHESS
Education
SEEK New Faculty & Postdoc WorkshopJanuary 5-9, 2004
70 applicants16 slots
Citizen Science