Online Collaboratory for NOM Research: Agent-based Simulations, Data-Mining, and Knowledge-Discovery Madey, G.R., Cabaniss, S.E., Maurice, P.A., Xiang,

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Presentation transcript:

Online Collaboratory for NOM Research: Agent-based Simulations, Data-Mining, and Knowledge-Discovery Madey, G.R., Cabaniss, S.E., Maurice, P.A., Xiang, X., Arthurs, L., Kennedy, R., Huang, Y University of Notre Dame University of New Mexico ASLO 2005 February 24, 2005

Overview Project Background E-Science Background The NOM e-Science Collaboratory Invitation to Test, Contribute, Participate Summary

Background Small NSF-ITR involving Computer Scientists and Environmental Scientists Focus: “Stochastic Synthesis: Simulating the environmental transformations of NOM” IT Focus: e-Science, Web-Based Science, Agent-Based Simulation, Data Mining

E-Science Background NSF Cyberinfrastructure Program Sensor networks Large amounts of data => discovery through datamining Online linked data repositories Online analysis programs: search, extraction, matching, simulation, visualizations, etc.

E-Science Background (cont) WWW Telescope Virtual Observatories NASA Skyview US National Virtual Observatory International Virtual Observatory Alliance More and more research done without every using a telescope => use of distributed data already collected

E-Science Background (cont) NCBI (National Center for Biotechnology Information)

Model Organism e-Science Sites FlyBase: Drosophila WormBase: C. elegans VectorBase: Mosquitos Mouse Genome DictyBase Etc. So many => GMOD

Questions? Has this research community begun to participate in the e-Science initiatives? Would this community benefit from e- Science initiatives? Is this community interested in an e- Science initiatives? Is this community willing to experiment?

The NOM e-Science Collaboratory Web-based Back-end database A cluster of simulation servers Shared simulation results Shared simulation configurations Other collaboratory features

Software download/online

Simulation HomePage:

Reaction Batch Model

Agent-Based Modeling of NOM NOM Humic substances & small organics NOM Humic substances & small organics CO 2 Cellulose Lignins Proteins Cutins Lipids Tannins O 2 light bacteria H +, OH - metals fungi O 2 light bacteria H +, OH - metals fungi O 2 light bacteria H +, OH - metals fungi Goal: A widely available, testable, mechanistic model of NOM evolution in the environment.

Data model Pseudo-Molecule Elemental Functional Structural Composition Calculated Chemical Properties and Reactivity Location Origin State

Environmental Parameters Physical: Temperature Light Intensity Chemical: Water pH [O 2 ] Biological: Bacterial Density Oxidase Activity Protease Activity Decarboxylase Activity

Invitation to Test, Contribute, Participate

Summary Growing phenomenon of e-Science based research One small “environmental science” e-Science site: Invitation to test, download, evaluate, contribute, build your own, etc. Description of Agent-based NOM Simulator (downloadable and online) by Steve Cabaniss next!