Presentations

2009

Anderson, C., R. Davis, S. Bandolin, A. M. Baptista and B. M. Tebo (2009). Analysis of in situ Mn(II)-oxidation in the Columbia River and offshore plume: Linking microbial community structure to active biogeochemical cycles. 19th International Symposium on Environmental Biogeochemistry, Hamburg, Germany.

Anthony, S. and F. G. Prahl (2009). Seasonal Variation in Willamette River Dissolved Methane Concentrations. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Bandolin, N., M. Wilkin, K. J. Rathmell and A. M. Baptista (2009). Towards long-term time series of sediment concentrations in the Columbia River. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Barnard, A. H., C. M. Orrico, J. Needoba, S. McLean and M. Lewis (2009). Contrasting the Temporal Scales of Variability in Particulate and Dissolved Materials in Four Estuarine/Coastal Systems. Coastal and Estuarine Research Federation 20th Bienniel Conference, Portland, OR.

Bebis, G., R. D. Boyle, B. Parvin, D. Koracin, Y. Kuno, J. Wang, R. Pajarola, P. Lindstrom, A. Hinkenjann, M. L. Encarnação, C. T. Silva, D. S. Coming (2009). Advances in Visual Computing. 5th International Symposium, ISVC 2009, Las Vegas, NV, November 30 - December 2, 2009, Proceedings, Part I ISVC 2009.

Bebis, G., R. D. Boyle, B. Parvin, D. Koracin, Y. Kuno, J. Wang, R. Pajarola, P. Lindstrom, A. Hinkenjann, M. L. Encarnação, C. T. Silva, D.l S. Coming (2009). Advances in Visual Computing. 5th International Symposium, ISVC 2009, Las Vegas, NV, November 30 - December 2, 2009, Proceedings, Part II ISVC 2009

Cramer, A., M. Xu, J. Nurmi, P. Tratnyek and H. Simon (2009). Correlating Geochemical Variables with Crenarchaeal Populations and Activities in Columbia River Sediment. Coastal and Estuarine Research Federation 20th Bienniel Conference, Portland, OR.

Crump, B. C., J. L. Bowen and J. K. Apple (2009). An overview of microbial communities across estuarine and coastal environmental gradients. Coastal and Estuarine Research Federation 20th Bienniel Conference, Portland, OR.

Crump, B. C., C. S. Fortunato, M. W. Smit, H. M. Simon, L. Herfort, Y. J. Zhang, C. G. Law, A. M. Baptista and P. Zuber (2009). Drifter studies: Diel patterns in bacterioplankton community composition and gene expression in the Columbia River plume and coastal ocean. Coastal and Estuarine Research Federation 20th Bienniel Conference, Portland, OR.

DeLorenzo, S., B. M. Tebo, S. L. Brauer, L. Herfort, J. Needoba and P. Zuber (2009). Seasonal Shifts in Active Microbial Assemblages Involved in Inorganic Carbon Fixation in the Pacific Northwest Coastal Margin. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Etiene T., C. Scheidegger, L. G. Nonato, R. M. Kirby, and C. Silva. (2009). Verifiable Visualization for Isosurface Extraction. IEEE Transactions on Visualization and Computer Graphics.

Fortunato, C. S. and B. C. Crump (2009). Spatial and temporal variability of microbial communities in the Columbia River, its estuary, and the adjacent coastal ocean assessed with tag pyrosequencing. Coastal and Estuarine Research Federation 20th Bienniel Conference, Portland, OR.

Goldman, J., K. Butler, S. Rounds, T. D. Peterson and J. Needoba (2009). Applications of Fluorescence Spectroscopy for Monitoring Water Quality in an Urban Watershed. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Green, V. L. and A. M. Baptista (2009). Research Undergraduate Experiences in Coastal Margins: An experiment in bi-directional mentoring. Coastal and Estuarine Research Federation 20th Bienniel Conference, Portland, OR.

Hansen, D. M., C. M. Seaton, A. V. Jaramillo, P. J. Turner, J. Schilling, D. Maier, J. Freire, C. T. Silva and A. Baptista (2009). From Observatories to Collaboratories: The SATURN Cyber-Infrastructure. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Herfort, L., L. McCue, M. Selby, V. Campbell, B. C. Crump, T. D. Peterson and P. Zuber (2009). Impact of and Estuarine Turbidity Maxima on Microbial Assemblages in the Columbia River Estuary. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Hyde, N., P. J. Turner, C. G. Law, Y. J. Zhang and A. M. Baptista (2009). A Virtual Estuary: Columbia River climatology and anomalies. Coastal and Estuarine Research Federation 20th Bienniel Conference, Portland, OR.

Kahn, P., L. Herfort, P. Zuber and T. D. Peterson (2009). Diversity of eukaryotic microbial assemblages across a river-to-ocean gradient using molecular and traditional tools. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Law, C. G. and A. M. Baptista (2009). A Virtual Estuary: Columbia River estuary and plume response to large-scale environmental change. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Levine, M., B. C. Crump, J. L. Green, C. Gurbisz, D. Stotts and J. Laskowski (2009). Learning Science through Research: Meaningful watershed experiences based on current scientific research. NOAA's Bay Watershed Education and Training (B-WET) Program 2009 Conference, Silver Spring, MD.

Needoba, J. (2009). Quantifying coastal nitrate flux and net ecosystem metabolism using in situ chemical sensors. Gordon Research Conference on Chemical Oceanography, Tilton School, NH.

Nurmi, J. T., S. Feng, P. G. Tratnyek, S. Chinni and B. M. Tebo (2009). Process and analytical chemistry of nano manganese oxide electrodes. 237th ACS National Meeting, Salt Lake City, UT.

Orrico, C., McLean, S., Barnard, A., Lewis, M., Moore, M., (2009). Long-term monitoring of biological, physical and chemical properties in two estuaries using the LOBO mooring system. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Plant, J. N., J. A. Needoba, L. J. Coletti, H. W. Jannasch, T. R. Martz and K. S. Johnson (2009). Linking agriculture, nitrogen inputs and ecosystem metabolism in Elkhorn Slough on time scales from hours to years. Coastal and Estuarine Research Federation 20th Bienniel Conference, Portland, OR.

Prahl, F., T. Peterson and J. Needoba (2009). Human Impacts on Biogeochemical Processes along the Land-to-Sea Continuum. Coastal and Estuarine Research Federation 20th Biennial Conference.

Prahl, F. G., J. Needoba, T. D. Peterson and M. Wolhowe (2009). A tidal bellows for dissolved methane in the lower Columbia River and its estuary. Coastal and Estuarine Research Federation 20th Bienniel Conference, Portland, OR.

Rivas, D. (2009). A numerical modeling study of the upwelling source waters along the Oregon coast during 2005. Gordon Research Conference on Coastal Ocean Circulation, 7-12 June 2009, New London, NH.

Santos, E., L. Lins, J. Ahrens, J. Freire, and C. Silva (2009). VisMashup: Streamlining the Creation of Custom Visualization Applications. IEEE Transactions on Visualization and Computer Graphics.

Santos, E., J. Tierny, A. Khan, B. Grimm, L. Lins, J. Freire, V. Pascucci, C. Silva, S. Klasky, R. Barreto, N. Podhorszki (2009). Enabling Advanced Visualization Tools in a Simulation Monitoring System. IEEE International Conference on e-Science 2009.

Santos, E., D. Koop, H. Vo, E. Anderson, J. Freire, and C. Silva (2009). Workflow Medleys: A New Approach to Construct Mashups. Statistical and Scientific Database Management (SSDBM), 2009.

Seaton, C. M., M. Wilkin, K. J. Rathmell, N. Hyde, Y. J. Zhang, T. D. Peterson, F. G. Prahl, J. A. Needoba and A. M. Baptista (2009). Salinity Intrusion in Estuaries: Lessons learned from a vertical profiler. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Smit, M. W., L. Herfort, V. Campbell, K. Tyrol, B. C. Crump, P. Zuber and H. M. Simon (2009). Microarray Analysis of Microbial Gene Expression in Columbia River Estuary, Plume and Coastal Ocean. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Wegner, K. E., E. A. Woody, J. J. Cresswell, E. Davis-Lowe, T. D. Peterson and A. M. Baptista (2009). Experiments in K-12 Education on Coastal Margins. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Wilkin, M., K. J. Rathmell, C. M. Seaton, P. J. Turner, J. A. Needoba, T. D. Peterson and A. M. Baptista (2009). Towards long-term time series of biogeochemical vertical profiles in the Columbia River estuary. Coastal and Estuarine Research Federation 20th Biennial Conference, Portland, OR.

Xu, M., J. Nurmi, P. Tratnyek and H. Simon (2009). Molecular and biogeochemical study of nonthermophilic crenarchaeota in Columbia River sediment. International Conference on Nitrification, Louisville, KY, July 5-9, 2009.

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2008

Christmas, A.F., Peterson, T.D. (2008). Determination of nanomolar concentrations of acetaminophen (paracetamol) in aqueous media by a simple colorimetric method using a liquid waveguide capillary cell coupled to a UV/Vis spectrophotometer, Annual Biomedical Research Conference for Minority Students, Orlando, FL, November 5-8.

Freire, J., D. Koop, et al. (2008). International Provenance and Annotation Workshop (IPAW).

Freire, J. and C. Silva (2008). Simplifying the Design of Workflows for Large-Scale Data Exploration and Visualization. Microsoft eScience Workshop.

Freire, J. and C. Silva (2008). Towards Enabling Social Analysis of Scientific Data. CHI Social Data Analysis Workshop.

Freire, J. and C. Silva (2008). VisTrails: Using Provenance to Streamline Data Exploration through Workflows. Keynote at the e-Science Workshop, Joao Pessoal, Brazil.

Fulton, D. P., A. L. Kurapov, et al. (2008). Effects of the Columbia River Plume on the Dynamics of Upwelling Off Oregon. 2008 Ocean Sciences Meeting, Orlando, FL.

Herfort, L., M. Selby, et al. (2008). Microbial-Mediated Activities in River-to-Ocean Environments in the Pacific Northwest. American Society for Microbiology General Meeting, Boston, MA.

Howe, B., D. Maier, et al. (2008). Quarrying Dataspaces: Schemaless Profiling of Unfamiliar Dataspaces conjunction with ICDE 2008. Workshop on Information Integration Methods, Architectures, and Systems (IIMAS), Cancun, Mexico.

Kosro, P. M. (2008). Physical oceanographic scales presentation. Oregon Policy Advisory Council Science & Technology Subcommittee Workshop on Size & Spacing Guidelines for Marine Reserves in Oregon's Territorial Sea, Oregon Institute of Marine Biology.

Murphy, D., L. Herfort, et al. (2008). Biogeography of the Dominant Bacterial Taxa Across a Salinity Gradient In the Columbia River Estuary 1. American Society for Microbiology General Meeting, Boston, MA.

Needoba, J. and J. Schoen (2008). Evaluation of Fluorescent Whitening Agents as Indicators of Anthropogenic Wastewater Discharges in the Columbia River, USA. AGU Chapman Conference, Birmingham, UK.

Needoba, J. A., A. M. Baptista, et al. (2008). Towards an in Situ Biogeochemical Observation Network for the Columbia River Estuary. Columbia River Estuary Conference on Ecosystem Restoration, Astoria, Oregon.

Nurmi, J. T., Tratnyek, P.G., et al. (2008). Hydrogen Peroxide and pH Sensor for use in a Fresh Water to Ocean System: Nano Biogenic MnO2 Microelectrode. 213th Electrochemical Society National Meeting, Phoenix, Arizona; Abs. # 1246.

Peterson, T. D., Kudela, R. M., et al. (2008). Influence of a recirculating river plume bulge on biogeochemical processes along the Oregon/Washington shelf. AGU Ocean Sciences, Orlando, Florida.

Rivas, D. (2008). A numerical modeling study of the upwelling source waters along the Oregon coast during 2005. AGU Fall Meeting 2008, San Francisco, CA.

Simon, H. M., J. T. Nurmi, et al. (2008). Combined Geochemical and Molecular Analyses of Crenarchaeal Assemblages in Columbia River Sediments. ASM, Boston, MA.

Strub, P. T., M. Saraceno, et al. (2008). Altimeter uses in coastal regions: two approaches. 2008 Ocean Sciences Meeting.

Wagner, J., Peterson, T.D., et al. (2008). Influence of changes in salinity on carbon release by phytoplankton, Apprenticeships in Science and Engineering Symposium, University of Portland.

Zhang, Y., A. Baptista, et al. (2008). A 3D hydrostatic model for coastal and oceanic applications. Seventh International Workshop on Unstructured Grid Numerical Modeling of Coastal, Shelf and Ocean Flows, Bedford Institute of Oceanography.

Zhang, Y., A. Baptista, et al. (2008). Tsunami inundation study with unstructured grids: benchmarking and application to the Cascadia Subduction Zone. Ocean Science 2008, Orlando, Florida.

[back to top] 2007

Anderson, E., S. Callahan, et al. (2007). Hardware-Assisted Point-Based Volume Rendering of Tetrahedral Meshes. SIBGRAPI 2007 - Brazilian Symposium on Computer Graphics and Image Processing.

Anderson, E. W., S. P. Callahan, et al. (2007). VisTrails: Using Provenance to Streamline Data Exploration. Post Proceedings of the International Workshop on Data Integration in the Life Sciences (DILS) 2007.

Freire, J. and C. Silva (2007). Provenance Management: Challenges and Opportunities. Invited tutorial at SBBD 2007 - Simposio Brasileiro de Banco de Dados, Joao Pessoal, Brazil.

Frolov, S., A. M. Baptista, et al. (2007). Data Assimilation with a Reduced-Dimensionality Model in a Coastal Observatory. Workshop on Data Assimilation in Support of Coastal Ocean Observing Systems, Corvallis, OR.

Howe, B., N. Hagerty, et al. (2007). The Ocean Appliance: Complete Platform Provisioning for Low-Cost Data Sharing. IEEE/MTS Oceans 2007, Vancouver, BC.

Howe, B., D. Maier, et al. (2007). Smoothing the ROI Curve for Scientific Data Management Applications. Third Biennial Conference on Innovative Data Systems Research (CIDR 2007), Asilomar, CA.

Limm, P., J. T. Nurmi, et al. (2007). Design, Fabrication, and Application of a Novel Nitrate/Nitrite Electrochemical Sensor. ASE Conference, Portland State University, Portland, Oregon.

Petes, L. (2007). Effects of environmental stress on reproductive physiology of intertidal mussels. PISCO All-Hands meeting, Corvallis, Oregon, Florida State University and Oregon State University.

Zhang, Y. L. and A. M. Baptista (2007). A 3D unstructured grid hydrostatic model for scales from O(10km) to O(1m) (poster). Grodon Research Conference, New London, NH.

Zhang, Y. L. and A. M. Baptista (2007). Towards a 3D higher-order estuarine and coastal model based on unstructured grids. Estuarine and Coastal Modeling, Newport, RI.

[back to top] 2006

Baptista, A.M. (2006). "CORIE: the first decade of a coastal-margin collaborative observatory," Oceans'06, MTS/ IEEE, Boston, MA

Bulusu, N., “Wireless Sensor Networks and Their Real World Applications”, Grace Hopper Conference, San Diego, October 2006.

Baptista, A.M. "CORIE: the first decade of a coastal margin collaborative observatory", MTS-IEEE Oceans'06, Boston, MA, September 18-21 2006.

Baptista, A.M. “The Columbia River observing system and a vision for future integrated systems”, 53rd annual Eastern Pacific Ocean Conference, EPOC'06, Timberline Lodge, OR, September 27-30.

Baptista, A.M., J.Y. Zhang, P.J. Turner, M. Wilkin, C. Seaton, E. vanMatre. "Scaling up a coastal margin observing system", 7th International Conference on HydroScience and Engineering, Philadelphia, PA, September 10-13 2006.

Baptista, A.M. "Oregon and ocean observing: vision, status and unique opportunities", presentation to the Natural Resources Cabinet of the Governor of Oregon, Salem, OR, August 2006. [back to top]