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0

Kahn P., Voorhees I., McAteer D., Herfort L., Peterson T.D., Crump B.C., Zuber P.. 0. Application of highly discriminating unique sequence elements of the 28S rRNA gene for determination of protest biogeography. In Preparation.

Herfort L., Maxey K., Voohees I., Simon H.M., Grobler K., T.D. P, Zuber P.. 0. Tidal and diel dynamics of M. major and its specific Teleaulax prey generate red water blooms in the Columbia River estuary. In Preparation.

2006

Bright L, Maier D, Howe B. 2006. Managing the Forecast Factory. 22nd International Conference on Data Engineering Workshops (ICDEW'06). :64-64.

2007

Vo H, Callahan SP, Smith N, Silva CT, Martin W, Owen D, Weinstein D. 2007. iRun: Interactive Rendering of Large Unstructured Grids.. 7th Eurographics Symposium on Parallel Graphics and Visualization.

Davidson S, Cohen-Boulakia S, Eyal A, Ludäscher B, McPhillips T, Bowers S, Anand M K, Freire J. 2007. Provenance in Scientific Workflow Systems. IEEE Data Engineering Bulletin.

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

2008

Petes LE, Menge BA, Chan F, Webb MAH. 2008. Gonadal tissue color is not a reliable indicator of sex in rocky intertidal mussels. Aquatic Biology. 3:63-70.

Howe B, Maier D, Rayner N, Rucker J. 2008. Quarrying dataspaces: Schemaless profiling of unfamiliar information sources. 2008 IEEE 24th International Conference on Data Engineeing workshop (ICDE Workshop 2008). :270-277.

Baptista AM, Howe B, Freire J, Maier D, Silva CT. 2008. Scientific Exploration in the Era of Ocean Observatories. Computing in Science & Engineering. 10(3):53-58.

2009

Crump BC, Peterson BJ, Raymond PA, Amon RMW, Rinehart A, McClelland JW, Holmes RM. 2009. Circumpolar synchrony in big river bacterioplankton. Proceedings of the National Academy of Sciences. 106(50):21208-21212.

Liu Y, MacCready P, Hickey BM, Dever EP, Kosro MP, Banas NS. 2009. Evaluation of a coastal ocean circulation model for the Columbia River plume in summer 2004. Journal of Geophysical Research. 114

Roland LA, McCarthy MD, Peterson TD, Walker BD. 2009. A large-volume micro-filtration system for isolating suspended particulate organic matter from seawater: fabrication and assessment of recovery and composition vs. GFF filters from central N. Pacific. Limnology and Oceanography Methods. 7:64-80.

Banas NS, Lessard EJ, Kudela RM, MacCready P, Peterson TD, Hickey BM, Frame E. 2009. Planktonic growth and grazing in the Columbia River plume region: A biophysical model study. Journal of Geophysical Research. 114

Howe B, Green-Fishback H, Maier D. 2009. Scientific Mashups: Runtime-Configurable Data Product Ensembles. Proceedings of the 21st International Conference, SSDBM 2009. 5566:19-36.

2010

Burla M, Baptista AM, Casillas E, Williams JG, Marsh DM. 2010. The influence of the Columbia River plume on the survival of steelhead (Oncorhynchus mykiss) and Chinook salmon (Oncorhynchus tshawytscha): a numerical exploration. Canadian Journal of Fisheries & Aquatic Sciences. 67(10):1671-1684.

Kudela RM, Horner-Devine AR, Banas NS, Hickey BM, Peterson TD, McCabe RM, Lessard EJ, Frame E, Bruland KW, Jay DA et al.. 2010. Multiple trophic levels fueled by recirculation in the Columbia River plume. Geophysical Research Letters .

Ghindilis A L., Schwarzkopf K R., Messing DS, Sezan I, Schuele P, Zhan C, Smith MW, Simon HM, Evans D R.. 2010. Real-Time Biosensor Platform: Fully Integrated Device for Impedimetric Assays. ECS Transactions . 33(8)

Hickey BM, Kudela RM, Nash JD, Bruland KW, Peterson WT, MacCready P, Lessard EJ, Jay DA, Banas NS, Baptista AM et al.. 2010. River Influences on Shelf Ecosystems: Introduction and synthesis. Journal of Geophysical Research. 115(C00B17)

Hickey BM, Kudela RM, Nash JD, Bruland KW, Peterson WT, MacCready P, Lessard EJ, Jay DA, Banas NS, Baptista AM et al.. 2010. River Influences on Shelf Ecosystems: Introduction and synthesis. Journal of Geophysical Research. 115(C00B17)

2011

Moeller F. 2011. Biogeochemical and Molecular Biological Characterization of Nitrogen Cycle Processes in the Columbia River and Estuary. Division of Environmental and Biomolecular Systems. Masters Thesis

Mates P, Santos E, Freire J, Silva CT. 2011. CrowdLabs: Social Analysis and Visualization for the Sciences. 23rd International Conference on Scientific and Statistical Database Management (SSDBM). 6809

Bräuer SL, Adams C, Kranzler K, Murphy D, Xu M, Zuber P, Simon HM, Baptista AM, Tebo BM. 2011. Culturable Rhodobacter and Shewanella species are abundant in estuarine turbidity maxima of the Columbia River. Environmental Microbiology . 13(3)

Megler VM, Maier D. 2011. Finding Haystacks with Needles: Ranked Search for Data Using Geospatial and Temporal Characteristics. 23rd Scientific and Statistical Database Management Conference.

Megler VM, Maier D. 2011. Finding Haystacks with Needles: Ranked Search for Data Using Geospatial and Temporal Characteristics. 23rd Scientific and Statistical Database Management Conference.

Herfort L, Peterson TD, McCue LA, Crump BC, Prahl FG, Baptista AM, Campbell V, Warnick R l, Selby M, Roegner GC et al.. 2011. Myrionecta rubra population genetic diversity and its cryptophyte chloroplast specificity in recurrent red tides in the Columbia River estuary. Aquatic Microbial Ecology. 62

Herfort L, Peterson TD, McCue LA, Zuber P. 2011. Protist 18S rRNA gene sequence analysis reveals multiple sources of organic matter to turbidity maxima of the Columbia River estuary. Marine Ecology Progress Series. 438:19-31.

Koop D, Santos E, Mates P, Vo H, Bonnet P, Bauer B, Surer B, Troyer M, Williams DN, Tohline JE et al.. 2011. A Provenance-Based Infrastructure to Support the Life Cycle of Executable Papers. Procedia Computer Science. 4:648-657.

Anderson EW, Potter KC, Matzen LE, Shepherd JF, Preston GA, Silva CT. 2011. A User Study of Visualization Effectiveness Using EEG and Cognitive Load. Computer Graphics Forum. 30(3):791-800.

2012

Fietz S., Huguet C., Bendle J., Escala M., Gallacher C., Herfort L, Jamieson R., Martínez-Garcia A., McClymont E.L., Peck V.L. et al.. 2012. Co-variation of crenarchaeol and branched GDGTs in globally-distributed marine and freshwater sedimentary archives. Global and Planetary Change. 92-93

Fietz S., Huguet C., Bendle J., Escala M., Gallacher C., Herfort L, Jamieson R., Martínez-Garcia A., McClymont E.L., Peck V.L. et al.. 2012. Co-variation of crenarchaeol and branched GDGTs in globally-distributed marine and freshwater sedimentary archives. Global and Planetary Change. 92-93

Ghindilis A L., Smith MW, Messing DS, Haynes VN, Middleton GB, Schwarzkopf K R., Campbell CE, Zhan C, Ulrich B, Frasier MJ et al.. 2012. Development of real-time assays for impedance-based detection of microbial double-stranded DNA targets. Biosensors and Bioelectronics.

Ghindilis A L., Smith MW, Messing DS, Haynes VN, Middleton GB, Schwarzkopf K R., Campbell CE, Zhan C, Ulrich B, Frasier MJ et al.. 2012. Development of real-time assays for impedance-based detection of microbial double-stranded DNA targets. Biosensors and Bioelectronics.

Roland LA, Zhang Y, Wang HV, Maderich V, Brovchenko I. 2012. A fully coupled wave-current model on unstructured grids. Journal of Geophysical Research.

Smith MW, Maier MA, Suciu D, Peterson TD, Bradstreet T, Nakayama J, Simon HM. 2012. High resolution microarray assay for rapid taxonomic assessment of Pseudo-nitzschia spp. (Bacillariophyceae) in the field. Harmful Algae .

Maier D, Megler VM, Baptista AM, Jaramillo A, Seaton C, Turner PJ. 2012. Navigating Oceans of Data. 7338:1-19.

Maier D, Megler VM, Baptista AM, Jaramillo A, Seaton C, Turner PJ. 2012. Navigating Oceans of Data. 7338:1-19.

Maier D, Megler VM, Baptista AM, Jaramillo A, Seaton C, Turner PJ. 2012. Navigating Oceans of Data. 7338:1-19.

Maier D, Megler VM, Baptista AM, Jaramillo A, Seaton C, Turner PJ. 2012. Navigating Oceans of Data. 7338:1-19.

White AE, Foster RA, Benitez-Nelson CR, Masqué P, Verdeny E, Popp BN, Arthur KE, Prahl FG. 2012. Nitrogen fixation in the Gulf of California and the Eastern Tropical North Pacific. Progress in Oceanography.

Herfort L, Peterson TD, Prahl FG, McCue LA, Needoba JA, Crump BC, Roegner GC, Campbell V, Zuber P. 2012. Red waters of Myrionecta rubra are biogeochemical hotspots for the Columbia River estuary with impacts on primary/secondary productions and nutrient cycles. Estuaries and Coasts.

McKibben SM, Strutton PG, Foley DG, Peterson TD, White AE. 2012. Satellite-based detection and monitoring of phytoplankton blooms along the Oregon Coast. Journal of Geophysical Research. 117(12)

Megler VM, Maier D. 2012. When big data leads to lost data. Proceedings of the 5th Ph.D. workshop on Information and knowledge - PIKM '12. :1.

Megler VM, Maier D. 2012. When big data leads to lost data. Proceedings of the 5th Ph.D. workshop on Information and knowledge - PIKM '12. :1.

2013

Peterson TD, Golda RL, Garcia ML, Li B, Maier MA, Needoba JA, Zuber P. 2013. Associations between Mesodinium rubrum and cryptophyte algae in the Columbia River estuary. Aquatic Microbial Ecology. 68(2)

Bräuer SL, Kranzler K, Goodson N, Murphy D, Simon HM, Baptista AM, Tebo BM. 2013. Dark Carbon Fixation in the Columbia River’s Estuarine Turbidity Maxima: Molecular Characterization of Red-Type cbbL Genes and Measurement of DIC Uptake Rates in Response to Added Electron Donors. Estuaries and Coasts. 36:1073-1083.

Megler VM, Maier D. 2013. Data Near Here: Bringing Relevant Data Closer to Scientists. Computing in Science and Engineering,. 15(3):44-53.

Megler VM, Maier D. 2013. Data Near Here: Bringing Relevant Data Closer to Scientists. Computing in Science and Engineering,. 15(3):44-53.

Miller J, Teel D, Baptista AM, Morgan C. 2013. Disentangling bottom-up and top-down effects on survival during early ocean residence in a population of Chinook salmon. Canadian Journal of Fisheries and Aquatic Sciences.

Miller J, Teel D, Baptista AM, Morgan C. 2013. Disentangling bottom-up and top-down effects on survival during early ocean residence in a population of Chinook salmon. Canadian Journal of Fisheries and Aquatic Sciences.

Ahn S, Peterson TD, Righter J, Miles DM, Tratnyek PG. 2013. Disinfection of Ballast Water with Iron Activated Persulfate. Environmental Science & Technology. 47(20)

Hugo RC, Smythe WF, McAllister SM, Young B, Maring B, Baptista AM. 2013. Lessons Learned from a Geoscience Education Program in an Alaska Native Community. Journal of Sustainability Education . 5(2151-7452)

Hugo RC, Smythe WF, McAllister SM, Young B, Maring B, Baptista AM. 2013. Lessons Learned from a Geoscience Education Program in an Alaska Native Community. Journal of Sustainability Education . 5(2151-7452)

Megler VM, Maier D. 2013. Taming the Metadata Mess. 29th IEEE International Conference on Data Engineering.

Megler VM, Maier D. 2013. Taming the Metadata Mess. 29th IEEE International Conference on Data Engineering.

Rathmell K, Wilkin M, Welle P, Mattson T, Baptista AM. 2013. A Very Smart Kayak .... Currents. 28(3)

2014

Megler VM, Maier D. 2014. Are Datasets Like Documents?: Evaluating Similarity-Based Ranked Search Over Scientific Data IEEE Transactions on Knowledge and Data Engineering. (99)

Megler VM, Maier D. 2014. Are Datasets Like Documents?: Evaluating Similarity-Based Ranked Search Over Scientific Data IEEE Transactions on Knowledge and Data Engineering. (99)

Miller J.A., Teel D.J., Peterson W.T., Baptista AM. 2014. Assessing the relative importance of local and regional processes on the survival of a threatened salmon population. PLoS ONE. 9(6)

McNeil C, D’Asaro E.A. 2014. A calibration equation for oxygen optodes based on physical properties of the sensing foil. Limnology and Oceanography: Methods.

Maier D, Megler VM, Tufte K. 2014. Challenges for Dataset Search (keynote). International Conference on Database Systems for Advanced Applications. 8421

Maier D, Megler VM, Tufte K. 2014. Challenges for Dataset Search (keynote). International Conference on Database Systems for Advanced Applications. 8421

Nidzieko NJ, Needoba JA, Monismith SG, Johnson KS. 2014. Fortnightly Tidal Modulations Affect Net Community Production in a Mesotidal Estuary. Estuaries and Coasts. 37(1):91-110.

Maier MA, Peterson TD. 2014. Observations of a Diatom Chytrid Parasite in the Lower Columbia River. Northwest Science. 88(3):234-245.

Megler VM. 2014. Ranked Similarity Search of Scientific Datasets: An Information Retrieval Approach. Computer Science. Doctor of Philosophy Dissertation

2015

Nechad B., Ruddick K., Schroeder T., Oubelkhier K., Blondeau-Patisseri D., Cherukuru N., Brando V., Dekker A., Clementson L., Banks A.C. et al.. 2015. CoastColour Round Robin data sets: A database to evaluate the performance of algorithms for the retrieval of water quality parameters in coastal waters. Earth System Science Data. 7(2):319-348.

Nechad B., Ruddick K., Schroeder T., Oubelkhier K., Blondeau-Patisseri D., Cherukuru N., Brando V., Dekker A., Clementson L., Banks A.C. et al.. 2015. CoastColour Round Robin data sets: A database to evaluate the performance of algorithms for the retrieval of water quality parameters in coastal waters. Earth System Science Data. 7(2):319-348.

Nechad B., Ruddick K., Schroeder T., Oubelkhier K., Blondeau-Patisseri D., Cherukuru N., Brando V., Dekker A., Clementson L., Banks A.C. et al.. 2015. CoastColour Round Robin data sets: A database to evaluate the performance of algorithms for the retrieval of water quality parameters in coastal waters. Earth System Science Data. 7(2):319-348.

Megler VM, Maier D, Bottomly D, White L, McWeeney S, Wilmot B. 2015. Data Like This: Ranked Search of Genomic Data. ExploreDB.

Megler VM, Maier D, Bottomly D, White L, McWeeney S, Wilmot B. 2015. Data Like This: Ranked Search of Genomic Data. ExploreDB.

Megler VM, Maier D, Bottomly D, White L, McWeeney S, Wilmot B. 2015. Data Like This: Ranked Search of Genomic Data. ExploreDB.

Megler VM, Maier D. 2015. Demonstrating "Data Near Here": Scientific Data Search. SIGMOD '15.

Megler VM, Maier D. 2015. Demonstrating "Data Near Here": Scientific Data Search. SIGMOD '15.

Youngblut ND, Wirth JS, Henriksen JR, Smith MW, Simon HM, Metcalf WW, Whitaker RJ. 2015. Genomic and phenotypic differentiation among Methanosarcina mazei populations from Columbia River sediment. ISME J. 10 March 2015

Baptista AM, Seaton C, Wilkin M, Riseman S, Needoba JA, Maier D, Turner PJ, Karna T, Lopez JE, Herfort L et al.. 2015. Infrastructure for collaborative science and societal applications in the Columbia River estuary. Frontiers of Earth Science. 9(4):659-682.

Baptista AM, Seaton C, Wilkin M, Riseman S, Needoba JA, Maier D, Turner PJ, Karna T, Lopez JE, Herfort L et al.. 2015. Infrastructure for collaborative science and societal applications in the Columbia River estuary. Frontiers of Earth Science. 9(4):659-682.

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